Update: Fixed, easily for once
Took off the TMIC to gain access to the clutch fork hole. Released the clutch pedal to release the pressure off the slave cylinder. Once depressurized, I looked in and wiggled the fork. Fork was somewhat stuck, but with a bit more force, I was able to slide the throw out bearing. Reconnected the slave cylinder onto the fork and checked the clutch pedal. Voila, not only did my clutch pedal regain the entire travel, pressurized, but I was able to disengage the transmission and take the car out of gear!!!
Reinstalled everything and crossed my finger before I turned the key. Car starts up and now the transmission shift perfectly. Drove around the block and everything is back to normal. What a feeling, not being able to drive the Subie for the last 9 months.
Conclusion: Make sure your throw out bearing slides smoothly before you finish up your swap or bleeding your clutch hydraulics.