So I think I may have figured out what I'm doing wrong. I was forgetting that 20MOA at 25 yards is not the same as 20MOA at 100 yards.
20MOA @ 100 yds = 21"
20MOA @ 25 yds = 1.3125"
So my assumption of shooting 20" high @25 yds, because of the base was way wrong!!!!
Ok, I will try to put as much info in about this as.
I just purchased a Rem 700 (.308) to shoot long range (1000 yds). So I installed a weaver 20MOA base and used my 3-9x40 Mil-dot scope I have used on my AR for NRA High Power Matches. It's a "cheaper" Bass Pro Model Scope with approx 25 MOA...