Something sounds a little off there. How is it running out of fuel table? It can only go up to atmospheric pressure or down to true vacuum, both of which should be on your table, unless you have some super race tuned induction system that has higher than 100% VE, which is unlikely.
If the same sensor was hooked up to the main port on the intake, it should be reading the same. Be careful where you hook it that you aren't hooking it to ported vacuum or some port that isn't in the main body of the intake manifold, sometimes they are connected to runners that go elsewhere.
How long is your vacuum hose to the internal MAP sensor? If done correctly they should read the same as external, its just there may be a small delay on the internal since the pressure change has to travel through the vacuum hose.