Syphon Filter Wiki

Lian Xing, I don't think this is an abandoned silo. There's an R-9 Devyatka sitting here ready to launch. Phagan was planning something big.

Gabe Logan, Syphon Filter

Jonathan Phagan is a secondary antagonist in Syphon Filter. He can be considered to be the creator of the Syphon Filter Virus. He is the founder and CEO of PHARCOM, a chemical organization.


Formerly involved as a Vice President to the corporation Wyn Industries, Phagan used substantial monetary resources to establish the multinational biotechnology and pharmaceuticals company PHARCOM. Although initially motivated by a fascination to collect artifacts of ancient civilisations, his company's research, whether or not he was knowingly aware, enabled the creation of Syphon Filter as a biological weapon for terrorism purposes. Phagan recruited top scientists into his project, and constructed global laboratories.

After beginning his association with the Consortium, Phagan cooperated with Erich Rhoemer and his international network of terrorists to use their army and test viral samples of Syphon Filter. Both factions conducted research on prisoners and Phagan shipped the infected specimens across borders under the cover of transporting artifacts to PHARCOM's Exposition Center in New York City.

Mara Aramov and Edward Benton turned on Phagan following the Washington, D.C. terrorist assault, attempting to uncover the location for PHARCOM's laboratories. His subsequent escape led to imprisonment by Rhoemer in a Ukrainian stronghold, and he became infected from a new phase of the virus. Although he implored the Russian to spare him, Aramov shot him in the back of his head when he tried to exit the stronghold catacombs, apparently killing him, but the Agency subsequently recovered Phagan, revealing that he was in fact incapacitated.

Agency operatives and PHARCOM researcher Elsa Weissinger kept Phagan on life support until his delivery to McKenzie Airbase in Colorado. The medical personnel extracted his plasma and the incubated virus within it for future tests beneath New York. Weissenger's pleas to keep him alive so they could further research the effect of the virus on him fell on deaf ears, for Agency commander Dillon Morgan cut off Phagan's support and killed him, keeping both the authorities and PHARCOM from finding him with an unknown pathogen.


Syphon Filter

Phagan first appeared in the original Syphon Filter. When Gabriel Logan was working with the Agency, they suspected Phagan of distributing the Syphon Filter Virus, Logan's orders were to attend an expo Phagan was holding and interrogate him. After following Phagan into an museum exhibit nearby where the expo was taking place, Logan spots Phagan talking to Edward Benton and Mara Aramov, while Logan listens to Benton and Mara question Phagan on the virus. Unsatisfied with Phagan's excuses, Benton orders Mara to interrogate him herself while he stays in the exhibit. Logan, talking things over with Lian Xing, decides to kill Benton and goes through the entirety of the complex to find and question Phagan. After going through the complex Logan finds Mara holding a gun to Phagan's head demanding for the Syphon Filter Virus. Phagan desperately attempts to bribe her; however Mara simply laughs and refuses the offer, ready to kill him. Before Mara can pull the trigger Logan incapacitates her and Phagan flees while Logan recovers Mara for further questioning.

Before Logan can find Phagan he is assigned to infiltrate a secret bunker of Rhoemer's to disable missiles inside. After Logan had finished his mission Lian is kidnapped and assumed to be dead. Soon after, it is discovered Phagan had been captured and placed in one of Erich Rhoemer's secret strongholds, in reality a cathedral taken over by Rhoemer's men with test subjects for the Syphon Filter Virus. Logan is ordered first to inject the surviving victims with an antigen and eliminate any of Rhoemer's scientists. After completing his mission Logan manages to infiltrate the catacombs of the stronghold where test subjects of the Virus were being held. Logan follows a scientist to Phagan's cell where he kills the scientist. Phagan, wanting to live, tells Logan Lian is still alive and offers her whereabouts in the catacombs. Logan accepts the offer and after finding Lian, Phagan flees the catacombs. After Logan and Lian escape the catacombs they spot Phagan near the exit begging for his life, suddenly a bullet is shot through Phagan's head and Phagan falls to the ground, presumably dead. The assailant is discovered none other to be but Mara Aramov, who had escaped the Agency's custody. Mara then informs Logan and Lian that Rhoemer's men are having conflict at one of Phagan's warehouses and Syphon Filter infected bodies in Viral carriers reside there. Logan, unsure if he should trust Mara, goes anyway.

Soon after it is revealed that a huge battle is ensuing between Rhoemer's soldiers and Phagan's guards, Logan running through the crossfire manages to track down the Viral carriers and ventures deeper into Phagan's warehouses, there he discovers Phagan had a more ambitious plan, as a huge Russian war missile is hidden inside.

After the missile launches, Gabe engages its self-destruct system and it explodes in mid-air; Rhoemer, infuriated, starts a fight with him but is killed with a gas grenade. Logan discovers the Agency's true motives but Phagan's intentions remain unknown for how he gained possession of the missile and his reasons for using it. The only thing Gabe knows is with Phagan, Markinson and Rhoemer all gone they may never know. CBDC then arrive to collect Syphon Filter Virus related evidence at the warehouses, thus leading to the events of Syphon Filter 2.

Syphon Filter 2

He is seen in the McKenzie Airbase Interior, accused of being terrorists by The Agency to the oblivious, yet suspicious, Military Police (MP), along with other captured enemies of the Agency.

Despite being shot in the head, Phagan is last seen on a life support system, but is brain dead, due to Mara's bullet in Syphon Filter. Dillon Morgan and Dr. Elsa Weissenger both walk in, discussing the eventual fate of Phagan. Morgan wants to pull the plug on Phagan's life support, as leaving him with PHARCOM may let the scientists discover the virus in their former CEO; Weissenger protests that he be kept alive to further discover the effects of the virus, but to no avail. Phagan dies of his injuries when Morgan deactivates his life support.

He also appears as a Multiplayer Character and dons his Syphon Filter Virus test subject robes from the original Syphon Filter.

Apparent death

  • Shot in the head by Mara Aramov inside Rhoemer's catacombs.

Legitimate death

  • Dies of his injuries after life support machine deactivated by Dillon Morgan after his conference with Elsa Weissenger inside MacKenzie Air Force Base.


Syphon Filter

Syphon Filter 2

Syphon Filter: The Omega Strain

Personality and characteristics

If Phagan was smart enough to make a complete set of backup data on the Syphon Filter project, he wouldn't have been stupid enough to store the encryption codes in the same place.

Phagan was a somewhat cunning individual. While he was apparently unwary that Edward Benton had appeared at the Expo Centre, and also knew nothing of Mara Aramov's allegiance shift to Black Baton following the failed assault on Washington, he had a complete set of backup data on Syphon Filter.


  • Phagan is the first escort character who could not defend themselves. He is also the first antagonist who must be protected. The others are Jason Chance and Mara Aramov.


Main Characters Anton Girdeux  · Edward Benton  · Erich Rhoemer  · Gabriel Logan  · Jonathan Phagan  · Lian Xing  · Mara Aramov  · Thomas Markinson
Minor Characters Alec Kabanov  · Ellis  · Jenkins  · Jorge Marcos  · Pavel Kravitch  · Richard Erikson  · Vince Hadden  · Vladislav Gabrek
Enemies Georgia Street Terrorists  · Flaming Enemy  · Girdeux's Terrorists  · Pharcom Bodyguards
Organizations Black Baton  · CBDC  · Pharcom  · The Agency
Missions Georgia Street  · Destroyed Subway  · Main Subway Line  · Washington Park  · Freedom Memorial  · Expo Center Reception  · Expo Center Dinorama  · Rhoemer's Base  · Base Bunker  · Base Tower  · Base Escape  · Rhoemer's Stronghold  · Stronghold Lower Level  · Stronghold Catacombs  · Pharcom Warehouses  · Pharcom Elite Guards  · Warehouse 76  · Silo Access Tunnels  · Tunnel Blackout  · Missile Silo
Weaponry 9mm  · .45  · Air Taser  · BIZ-2  · C4 Explosive  · Combat shotgun · G-18  · Gas Grenade Grenade  · HK-5  · K3G4 Assault Rifle  · M-16  · M-79  · Nightvision rifle  · PK-102  · Shotgun  · Sniper Rifle
Gadgets Card Key  · Flak Jacket  · Flashlight  · Viral Antigen  · Viral Scanner
Vehicles UH-60 Blackhawk
Conflicts Washington D.C. Attack  · First Investigation of PHARCOM  · Destruction of Rhoemer's Base  · Sabotage of Rhoemer's Cathedral  · Kazakhstan Missile Incident
Transcipts Georgia Street  · Destroyed Subway  · Main Subway Line  · Washington Park  · Freedom Memorial  · Expo Center Reception  · Expo Center Dinorama  · Rhoemer's Base  · Base Bunker  · Base Tower  · Base Escape  · Rhoemer's Stronghold  · Stronghold Lower Level  · Stronghold Catacombs  · Pharcom Warehouses  · Pharcom Elite Guards  · Warehouse 76  · Silo Access Tunnels  · Tunnel Blackout  · Missile Silo
Main Characters Dillon Morgan  · Elsa Weissinger  · Gabriel Logan  · Jason Chance  · Lawrence Mujari  · Lian Xing  · Lyle Stevens  · Mara Aramov  · Steven Archer  · Teresa Lipan  · Thomas Holman  · Thomas Markinson  · Uri Gregorov
Minor Characters Carter  · Colorado Bridge Bombing Commander  · Davies  · Derek Falkan  · Dobson  · Eschelman  · Ferguson  · Gershon  · Imposter Gregorov  · John Ramirez  · Jonathan Phagan  · Kowalski  · Mr. Cochran  · Shi-Hao  · Thompson  · Unnamed Airman  · Unnamed Doctor  · Vince Hadden  · Vladimir Nedobryi
Missions Colorado Mountains  · McKenzie Airbase Interior  · Colorado Interstate 70  · I-70 Mountain Bridge  · McKenzie Airbase Exterior  · Colorado Train Ride  · Colorado Train Race  · C-130 Wreck Site  · Pharcom Expo Center  · Morgan  · Moscow Club 32  · Moscow Streets  · Volkov Park  · Gregorov  · Aljir Prison Break-In  · Aljir Prison Escape  · Agency Bio-Lab  · Agency Bio-Lab Escape  · New York Slums  · New York Sewer  · Finale
Locations Club 32  · McKenzie Airbase  · Rocky Mountains, Colorado
Terrorists Spooks  · Unit one
Multiplayer Abandoned Bank  · Catacombs  · Kazakhstan Warehouses  · New York Garage  · New York Slums  · Park Hedge Maze  · Park Jungle Gym  · Pharcom Expo Center (multiplayer)  · Rooftops (multiplayer)  · Small Village (multiplayer)
Weaponry .45  · 9mm  · 12 Gauge  · Air Taser  · BIZ-2  · C-4 Explosive  · Combat Knife  · Crossbow  · G-18  · H11  · Hand Taser  · HK-5  · Incendiary Grenade  · K3G4 Assault Rifle  · M-16  · M-79  · Nerve Gas Grenade  · Nightvision rifle  · PK-102  · Sniper Rifle  · Tear Gas Launcher  · The Flame-Thrower  · UAS-12  ·
Gadgets Binoculars  · Camera Scrambler  · Cellular Modem  · Flak Jacket  · Flashlight  · Nightvision Goggles  · Transponder Locator
Vehicles C-130 Hercules  · F-22 Raptor
Conflicts Raid on the C-130 Wreckage  · Escape from Mackenzie Air Force Base  · Second Investigation of PHARCOM  · Meeting with Uri Gregorav imposter  · Rescue of Uri Gregorav  · Search for Syphon Filter antidote  · Escape from New York City
Main Characters Gabriel Logan  · Lian Xing
Minor Characters Ellis  · Nigel Cummings  · Silvers
Missions Hotel Fukushima  · Costa Rican Plantation  · C5 Galaxy Transport  · Pugari Gold Mine  · Pugari Complex  · Kabul Afghanistan  · S.S. Lorelei  · Aztec Ruins  · Waterfront  · Docks Final Assault  · Convoy  · The Beast  · Australian Outback  · St. George Australia  · Paradise Ridge  · Militia Compound  · Underground Bunker  · Senate Building  · DC Subway
Weaponry .45  · 9mm  · Air Taser  · AU300 Heavy Barrel  · BIZ-2  · Combat Knife  · Crossbow  · Falcon  · G-18  · H11  · HK-5  · K3G4  · M-16  · M-79  · MARS  · Nightvision rifle  · PK-102  · Shotgun  · Spyder  · Tear Gas Launcher  · UAS-12
Multiplayer maps Afghanistan  · Computer center  · Izmalavio Park  · McKenzie Air Force Base  · Paradise Ridge  · Rhoemer's Stronghold  · S.S. Lorelei  · Training Simulator  ·
Multiplayer characters Agency operative  · Anton Girdeux  · Bag Lady  · CBDC operative  · Corpse  · Elsa Weissinger  · Erich Rhoemer  · Evil scientist  · Gabe Logan  · John Ramirez  · Jonathan Phagan  · Jorge Marcos  · Lawrence Mujari  · Lian Xing  · Mara Aramov  · Military Police  · Monk  · Ninja Gabe  · Russian Bodyguard  · Spook  · SWAT Officer  · Teresa Lipan  · Terrorist  · Unit One  · Uri Gregorov  · Virtual test subject  · Vladislav Gabrek
Minigame types Assassination  · Biathlon  · Demolition  · Elimination  · Thief
Minigame maps China Exhibit  · Colorado Bridge  · D.C. Subway  · Military Base  · New York Slums  · Phagan's Warehouse  · Rhoemer's Fortress  · Washington Park  · Whispering Woods Mortuary
Conflicts Assassination of Shi Hao  · Costa Rican Incident  · Investigation of Pugari Complex  · Soviet-Afghan War  · First Destruction of the SS Lorelei  · Investigation of Erich Rhoemer  · Abduction of Elsa Weissenger  · Assassination of Commander Silvers  · Paradise Ridge Incident  · Attempted Apprehension of Mara Aramov
Main Characters Gabriel Logan  · Lawrence Mujari  · Lian Xing  · Mara Aramov  · Teresa Lipan
Minor Characters Alima Haddad  · Andre Proust  · Elsa Weissinger  · Gary Stoneman  · Gina Hunter  · Imani Gray  ·Jean Fournier  · Maggie Powers  · Mikhail Pulikovsky  · Mikhas Ivankhov  · Oleg Petrenko  · Rodion Ushakov  · Soren Masson  · Vladik Savin  · Vladimir Zhidkov  · William Crusher  · Yegor Leonov  · Yuschenko
Missions IPCA European Command: Training Centre  · Carthage, Michigan: Quarantine Zone  · Carthage, Michigan: Warehouse District  · Carthage, Michigan: Carthage Mall  · Pescara, Italy: St Cetteo's Square  · Mazyr, Belarus: Krivorozhstal Mill  · Mazyr, Belarus: Belaya Vezha  · Tash, Kumyr, Kyrgysztan: Saydahmat's Village  · Sana'a, Yemen: Arms Bazaar  · Sana'a, Yemen: Taherir Palace  · Minsk, Belarus: International University  · Samaschki, Chechnya: Ivankov's Home  · North Atlantic: Lorelei Salvage Rig  · Tokyo, Japan: Murukawa Tower  · Taguang, Myanmar: Irawaddy Basin  · Zurich, Switzerland: Niculescu Funds Tower  · Budva, Montenegro: Niculescu's Villa Estate  · Kiev, Ukraine: Chechen Terrorist Base
Organizations IPCA
Weaponry Beta Weapons  · C11  · China Type 56  · Combat shotgun  · FAL  · FAMAS  · G 33E  · GAWS 12 gauge  · K-BAR  · M1 Super 90  · Riot shotgun  · Shot Defender  · ShotHammer  · Silenced . 44  · Slug Defender  · SlugHammer  · SPA-12 shotgun  · SPA-15 shotgun  · Stava M70 B1  · SSG 550  · Sweeper 12 gauge
Conflicts ALA Assault on Carthage  · Assassination of Dimitri  · Sabotage of CDP Operations  · Transaction on Kyrgysztan  · Assault on Yemen  · Raid on Jandran's Labs  · Investigation of Chechen Genocide  · Second Destruction of the SS Lorelei  · Assault on Murukawa Industries  · Recovery of Imani Grey  · Raid on Meta Global Headquarters  · Raid on Niculescu's Estate  · Showdown with the CDP  · Assassination of Mara Aramov and Elsa Weissenger
Main Characters Gabriel Logan
Minor Characters Engineer  · Goran Zivmović
Weaponry FAMAS  · K-BAR  · Silenced . 44  · SSP 90
Act I. Fire and Ice Insertion Point Alpha  · Red Jack  · Finding Freeman  · A Man Without Power  · Freeman's Files
Act II. Blood and Oil Under NORAD's Nose  · Security Section D  · Kreisler's Garden  · Freeman's Answer
Act III. Ancient History Old Friends  · Memories
Act IV. Saving Private Janzen Forged Under Fire  · Traitor in our Midst  · The Ultimate Sacrifice  · The Trojan Horse
Act V. Root of All Evil Fist Full of Rubles  · Blood Money
Act VI. Touchstone Meeting with Fate  · Into the Abyss
Act VII. Singularity Red Section  · Drowning  · Event Horizon  · Matter's End
Bonus missions Goodnight Sweetheart  · KemSynth Tower  · Sana Yemen  · Birds of a Feather  · Jimmy Zhou's Army
Multiplayer maps Canyon  · Detroit  · Refinery  · Shanty town  · Weapons plant
Multiplayer modes Free for all  · Objective  · Rogue agent  · Team deathmatch
Conflicts Red Section Assault on KemSynth Petroleum  · Investigation of KemSynth Botanics  · United Nations Assault on Tuzla Munitions  · Investigation of Yavlinsky  · Transaction on Germany  · Red Section Takedown  · Assassination of Mara Aramov and Elsa Weissenger  · Faceoff with Jimmy Zhou
Main Characters Gabriel Logan  · Lawrence Mujari  · Lian Xing  · Teresa Lipan
Weaponry K-BAR  · SG-10 Bolt Pistol  · Silenced . 44  · SSP 90
Act I. Cargo Hold 5 Pirates of Somalia  · Going Under  · Ocean's Five  · Sea of Darkness
Act II. Terminal Drift What Lies Below  · Depths of Darkness  · Dead Currents  · Drowning
Act III. Crimson Flood Missing Friends  · Found Enemies  · Nowhere To Run
Act IV. Tyorma Redemption Trinidad  · Into The Cold  · Deadly Cargo
Act V. Shifting Sands Operation Canyon Storm  · Our Hidden Past  · Desert Flames
Act VI. Shattered Destiny The Long Descent  · Powerless  · Disintegration  · Leading The Blind  · With Violent Intent
Bonus missions Killing Time  · Lian's First Time  · Shadowed  · Behind The Scenes  · Left Behind
Multiplayer maps Canyon  · Casino  · Depot  · Detroit  · SRefinery  · Shanty town  · Village
Multiplayer modes Free for all  · Retrieval  · Rogue agent  · Team deathmatch  · Sabotage
Conflicts Assault on the St. Helens  · Raid on the St. Helens' Wreckage  · Spetsnaz Incursion on Azerbaijan  · Escape from Gebel Tyorma  · Raid on Bitar's Bunker  · Faceoff with al-Jamil  · Assassination of Qwan Tak