Hey juiced a couple things.
1. Your intake is deffinately hurting your numbers.
2. a custom cam would help, but in my opinion not to pauls levels, unless you do cam and intake.
3. Steve's dyno at powertrain dynamics shows numbers lower than 2 other dyno's my car has been on (this is after he tuned it for me) This does not upset me in the least, both other dyno days asked what I "thought" the car produced, both times I was low by at least 15-20.
4. The tune does not have much to do with domed or flat top pistons, he tunes for driveability, A/F ratio, and overall spark. So in essence hes using those numbers to tune, not comp ratio. (there's a lot more to it than that but a tune has more to do with those values than Comp ratio) The higher comp ratio would cause detonation, unless a higher octane gas is being used, so if there was no pinging and the A/F and timing is correct, you should be good.
I'm obviously not a tuner, but these are the thing I always look and listen for.
I personally dont care that much about HP numbers, their fun to throw around, but thats all. I brag about the TQ the car makes, for a small displacement small block it makes a boatload of TQ, and thats way more fun to me on the street. Dont get me wrong I love top speed, probably more than the next guy, but I really love the thrill of the acceleration up to that speed.
Hope that may clear up some things for ya. Also if you want to get a dyno run on a different dyno i'll give you a couple shops close that charge a fair price for just dyno runs.