Here's the Hirogen deck I've been working on over the last couple of weeks. After a few friendly games to test various cards, I'm pretty confident that it's a solid deck. First the deck, then a bit of discussion on why :)

SEED DECK (30 + 6)

MISSIONS
Corner Enemy Ship
Hunt Alien
Restock Supplies
Secure Station (x3)

DOORWAYS
Q's Tent
Q-Flash
Space Time Portal
Temporal Micro-Wormhole (x2)

DILEMMAS
17 dilemmas (your choice)

FACILITIES
Hirogen Outpost

OTHERS
Assign Support Personnel
Beware Of Q
Defend Homeworld
Prepare The Prisoner
Q The Referee (x2)
Quark's Isolinear Rods
 

Q'S TENT (13)
Alas, Poor Queen
Borg Nanoprobes
Cardassian Trap
Dead End
Distortion of Space/Time Continuum
Donik
Feedback Surge
Hirogen Disruptor Rifle
Hunting Vessel
Medical Kit
Q Flash
Regenerate
Revolving Door

Q-FLASH (5)
Door-Net
Hide And Seek
Penalty Box (x2)
Picard's Artificial Heart
 

DRAW DECK (38)

PERSONEL & SHIPS
Bariel
Decaren
Dr. Telek R'Mor
Equinox Doctor
Gann
Idrin
Jetarn
Jorik
Karon
Karr
Netek
Turanj
Venetic Hunter (x2)

EQUIPMENT
Hirogen Disruptor Rifle
Hirogen Talon (x2)

REFEREE ICON CARDS
Panel Overload
Temporal Vortex (x2)
The Juggler

CAPTRUE RELATED CARDS
Reflection Therapy (x2)
Relics Of The Chase
Rituals Of The Hunt (x2)

OTHER CARDS
Amanda Rogers (x2)
Hirogen Hunt
Kivas Fajo--Collector (x2)
Palor Toff--Alien Trader
Q-Flash (x2)
Q's Tent (x3)
The Traveler: Transcendence

The goal of the deck is to be a quick Hirogen deck. Of the 38 cards, 9 just "aren't there" in that they can be cycled with either Prepare The Prisoner or Q the Referee. And while they're at it, could get a ship or Rituals of the Hunt from Hirogen Hunt. This made getting a ship on the first turn incredibly easy, and with even less of a drawback than Spacedoor :). Or for more fun: put Rituals of the Hunt under your draw deck to download a Rituals of the Hunt :)

Anyway, on the first turn, ASP for Jetarn, QIR for Bariel (to hand), DH for Gann (or Turranj if Gann is in your hand), and Special Download Hirogen Hunt. Then play 2 cards (one free w/ the hunt), and then put either a capture or referee card on the bottom of your deck and download a ship. After that, grab Dr Telek R'Mor (discarding the TMW to play him to the ship), and you're off and running.

Card choices... Q-Flash: no one's been using it for a while, so I thought I'd whip it out. Also Hide And Seek is very good right about now with everyone playing loads of Uniques :)... Fajo's Gallery: to be honest, I just plum forgot about it, and I was playing
several capture dilemmas, too :( but anyway, it'll probably go in if I pull out the Q-Flash... Revolving Door: some people are just too dependent on the Q's Tent. Wait 'til you see what Jen's Deck did to them :)

Of course you will want to change the referee cards around to fit your meta-game. In fact, I'll change mine to better fit my own metagame :)

Thanks for reading :)