Season 3

Season three sees several major cast changes. In the beginning of the first season three episode it is revealed that Emma is dead while Adam is also presumed dead (which later turns out to be false). A New Fourth New Mutant, Lexa Pierce, joins Mutant X. Mutant X now works for The Secret Society Dominion, which hires them in most episodes to solve problems revolving around New Mutants or other genetic problems.
	
		Title
		Original Airdate
		#
	
	
		Into The Moonless Night
		September 29, 2003
		301
	
	
		In the aftermath of disaster, the Mutant X team must 
		deal with the death of one of their teammates, the disappearance of 
		another, the return of Mason Eckhart, and the arrival of a mysterious 
		New Mutant with an agenda of her own. Brennan is captured and tortured 
		for information. In the end, Mutant X arrives and saves Brennan. They 
		leave, but not before Brennan defeats Eckhart. The last scene is a 
		memorial service for Kane and Emma.
	
	
		Wages Of Sin
		October 6, 2003
		302
	
	
		A new deadly substance falls in the hands of a person 
		who wants to auction it off to terrorists. Mutant X sneaks into the 
		auction and two of their members pose as terrorists.
	
	
		The Breed
		October 13, 2003
		303
	
	
		The Mutant X team is brought in to help a military base 
		that has become infected with a deadly disease.
	
	
		Where Evil Dwells
		October 20, 2003
		304
	
	
		The Mutant X team must stop a serial killer who mimics 
		the infamous puzzle killer and leaves clues to his next victims in the 
		form of puzzles. A psionic New Mutant who incarcerated the puzzle killer 
		searches his mind for the identity of the killer, and in the end it is 
		revealed to be none other than herself. She dies attempting to kill 
		Shalimar.
	
	
		The Taking Of Crows
		October 27, 2003
		305
	
	
		When Lexa is unknowingly drugged with a lethal 
		substance, the team must race to find the antidote before it's too late.
	
	
		Shadows Of Darkness
		November 3, 2003
		306
	
	
		The Mutant X team is called in to investigate bizarre 
		deaths occurring at a local hospital. The children's psychiatric ward 
		burned down years ago and is reopening, but is allegedly haunted by the 
		ghosts of the deceased children. The arsonist was a previous patient who 
		was forced to overcome his fears by facing them while being stressed 
		with an injection of cortisol who still inhabits the hospital. Mutant X 
		finds this patient and tries to help him, but instead of being helped, 
		he commits suicide.
	
	
		The Hand Of God
		November 10, 2003
		307
	
	
		The Mutant X team embarks on a mission to locate and 
		capture a powerful New Mutant who possesses god-like powers. Mutant X is 
		not the only party interested, their competition knocks down The Double 
		Helix. Shalimar is ejected from the plane and is impaled on a tree. 
		Shalimar is saved by Kristoff, a New Mutant who has the ability to 
		absorb a New Mutant or a Non-New Mutant's wound then heal himself or 
		transfer them through another touch. Then another New Mutant named 
		Terra, a Lupine Feral, shoots Brennan and Shalimar implores Kristoff to 
		save his life. Kristoff absorbs the gunshot wound and appears dead. The 
		traitor within the group no longer has a contact but he is plotting to 
		sell the corpse before Kristoff transfers his death.
	
	
		Wasteland
		November 17, 2003
		308
	
	
		Jesse is forced to reconnect with his former fiancée 
		when the Mutant X team learns that her company is involved in the 
		genetic manipulation of crops.
	
	
		No Exit
		January 12, 2004
		309
	
	
		A revenge-seeking Tele-Cybernetic New Mutant uses his 
		powers to overtake Sanctuary's security system in a plot to destroy 
		Mutant X.
	
	
		Brother's Keeper
		January 19, 2004
		310
	
	
		The Mutant X team learns about Lexa's estranged twin 
		brother, Leo, when he becomes the main target of an underground 
		operation harvesting New Mutant Organs. Leo's New Mutancy which makes 
		him the universal donor also makes him lose control to his other 
		personalities. Eckhart offers to take care of Leo in exchange Lexa must 
		work for him. He escapes and is avoiding her to protect her from his 
		alternate personality, Troy. Brennan's officiousness gets himself 
		knocked out and as Troy is about to kill him, Lexa is confronted with a 
		difficult choice.
	
	
		Possibilities
		January 26, 2004
		311
	
	
		Brennan and The Mutant X team join forces with a time 
		traveling New Mutant to defuse a bomb threatening devastating 
		consequences.
	
	
		Conspiracy Theory
		February 2, 2004
		312
	
	
		While Brennan and Shalimar investigate a mysterious 
		plane crash, Lexa contemplates her future with the Mutant X team. A 
		conspiracy theorist, Eddie believes everything revolves around an 
		individual named Kane who has just mysteriously dropped off the radar. 
		He helps uncover Project Contact, the creation of the perfect assassin, 
		but unfortunately is touch killed by one himself. Meanwhile, Lexa 
		decides to sit out this mission, but walks in the last scene just in 
		time to save the day.
	
	
		Art Of Attraction
		February 9, 2004
		313
	
	
		As the Mutant X team fights to retrieve a formula hidden 
		in a collection of artwork, Shalimar is given vital information from a 
		mysterious source. The formula for a non-polluting fuel is hidden in 
		three paintings. Lexa teams up with Randall Blake, a New Mutant with the 
		ability to transform himself into dark gas and create dark anti-matter 
		shields or blasts with his hands uses his abilities to obtain the last 
		piece. Shalimar and Brennan try to track their mysterious source, who is 
		revealed to be Kane himself.
	
	
		A Normal Life
		February 16, 2004
		314
	
	
		Mutant X tracks down an ostensibly rogue scientist who 
		is holding members of the council hostage. Shalimar gets instructions to 
		assist this alleged murderer from Kane to prove his innocence and save 
		the remaining council members. The council does not want the scientist 
		to escape but Kane has a way of making people disappear.
	
	
		Divided Loyalties
		February 23, 2004
		315
	
	
		Brennan is forced to return to his criminal past when 
		Mutant X discovers that his old partner is involved in stealing secrets 
		from The Dominion. Hayes was killed shortly after planting a key to a 
		disc that contains all of the dominion's research. The Dominion wants 
		Mutant X to locate the buyer as Brennan infiltrates the middlemen. 
		Kane's impeccable timing helps Brennan earn their trust and ironically 
		turns out to be the buyer. Kane's quest for answers leaves him only with 
		more questions.
	
	
		Age Of Innocence
		April 5, 2004
		316
	
	
		Mutant X unearths an old military experiment involving 
		an age-reversal serum and is surprised to discover that Jesse's 
		grandfather is one of the test subjects. Kane expresses the need for the 
		research not to fall into the wrong hands, as well as Major William 
		Kilmartin. Jesse is left to "make the right choice".
	
	
		She's Come Undone
		April 12, 2004
		317
	
	
		Discovering that their teammate Lexa is the subject of a 
		covert experiment that is controlling her, The Mutant X team hunts for 
		the doctor who is responsible. Kane returns and reveals their true enemy 
		as a corrupt faction of The Dominion and calls for war dwarfing their 
		alteration with Ashlocke or Eckhart.
	
	
		In Between
		April 19, 2004
		318
	
	
		When Jesse's life hangs in the balance, Brennan must 
		connect to him and lead him through past memories they've shared in 
		order to save his life. Shalimar and Lexa search for someone still kept 
		in stasis after the fall of Genomex.
	
	
		Dream Lover
		April 26, 2004
		319
	
	
		Mutant X must stop a scientist from cloning women for 
		use as slaves in his ultra-exclusive men's club. Shalimar receives a 
		call from Feline Feral Gia DuChamps and gets Mutant X involved in this 
		affair. Shalimar and Lexa are cloned and sent in as trojan horses to 
		seduce and destroy the others. The real women are kept sedated and 
		finally rescued.
	
	
		The Prophecy
		May 3, 2004
		320
	
	
		Brennan battles with The Guardian Of The Prophecy to 
		stop the late New Mutant Ashlocke's plan from beyond the grave of world 
		domination. A New Mutant created from The DNA of all four New Mutant 
		Classifications is created and Brennan and The Psionic DNA Contributor 
		to find The Child. The Child chooses good and leaves with the woman 
		while Brennan remains with Mutant X. The Precognitive Psionic New Mutant 
		warns Shalimar of the upcoming battle.
	
	
		Cirque Des Merveilles
		May 10, 2004
		321
	
	
		Lexa's suspicions lead Mutant X to unveil a traveling 
		death camp, which is posed as a circus for New Mutant Refugees and 
		Mutant X's enemy within The Dominion. Brennan and Shalimar infiltrate 
		and their communication signals disappear off the grid. The leader of 
		the traveling circus is one of Eckhart's sleeper agents brainwashed to 
		purge the world of New Mutants.
	
	
		The Assault
		May 17, 2004
		322
	
	
		When The Dominion captures Lexa, Jesse and the team 
		rushes to help her, they found out some information about The Creator, 
		the original Kane. Kane detonates The Double Helix to allow Mutant X to 
		escape. Last in series.