In fact, based on early reports and small samples this year, he may end up the better prospect than Tyler Beede.
Hard to really make that comparison right now; Beede still has 2 more years at Vanderbilt before he gets to the point that Stilson is at now.
Beede hasn't been the best. He's pitching 1-3, 4.8 ERA, 35.2 IP, 42 hits, 10 walks, 38 K's. That's a decent stat line for a first year player but barring great improvements I just don't see him going in the first round as a college pitcher. With the way the draft is done now, he will almost for sure get less than the reported 2M we offered him. Not paying him 3M worked out in three ways for us; a) it established that the Jays won't crack at the negotiations table. The Jays won't be pushed over or pressured by 1st round picks and b) his numbers in college would translate to an not-worth-3M stat line in rookie ball. Probably wouldn't move through our system that fast. c) Beede reportedly had some questions about the health of his arm which is likely the main reason the Jays backed out, according to some website the father accused the Jays of using "Dr. Discount" to make up an injury and make him sign for less as damaged goods.
Overall I'm quite happy we didn't sign him last year. I'm looking forward to the compensation pick he netted us, even if it likely ends up a lower ceiling college player. (Due to sign-ability concerns.)
That (^) was mainly an update for the casual fan who isn't really following Beede. In response to your post I think it is incredibly unlikely that he reaches the level of Stilson in two years. College players (Pitchers especially) tend to still pitch with their HS mechanics (No reason to change them from the colleges, in the short term it could make the pitchers worse and they are only pitching for you for 4 years.) and get abused by coaches (no reason to worry about preserving arms when you only have them for 4 years). Between those and not being part of an organization that pays you to focus on baseball every day, college pitchers tend to develop much slower. I would even make the case that if Strasburg decided to play pro ball out of HS rather than College, he would be a better player today.