In Frankie Piliere's Farm System Rankings for FanHouse, he places the Astros delicately at #29:
It may not seem that way given this ranking, but Houston is headed in the right direction. Jason Castro has been strong and proved many doubters wrong. At the lower levels, a number of high-upside arms like Jordan Lyles and Ross Seaton have emerged. There is work to be done, but the Astros are on track.
He also has two members of Eddie's Farm in the Top 100 prospects list: Jason Castro (#27), and Jordan Lyles (#99).