My choices:
EP242: The Love Quest of Smidgen the Snack Cake.
I loved this one unabashedly. I had a very strong reaction to it, which was at least partially due to Mr. Cmar's phenomenal reading. My reaction took two very different forms - lots of LOLing for the piece's utter ridiculousness, and the tragedy of the ending was like a punch to the stomach. I will remember this story for a long, long time, if not forever.
EP253: Eugene
Great story really captured the doggie personality very well.
EP247: Bridesicle
I first heard this on StarShipSofa, and had a very strong emotional reaction to it. It just moved me profoundly, right down to the bit of hope at the very end.
Honorable mention: EP248: Spar
This lost out to the others because I didn't have any particular emotional reaction to it. However, I thought it was a fascinating story on an intellectual level, and I enjoyed the conversation it sparked.