I guess another way of looking at it is if you fitted as an example a ported head, and gained 5% in VE, if your injectors are already to small, what are you going to do? Turn the boost DOWN so they can cope? kind of makes this 5% you have found in VE pointless.
The key would be to have extra fuelling available, so you can add some more.

There is nothing at all wrong with increasing fuel pressure as long as the increase is sensible, I've seen some crazy base pressures all of our stuff uses the factory base pressure, so people can still follow the workshop manual.