Science is by definition incomplete. It only provides a means for proposing theories to test observed phenomenon, test them, and use them to extrapolate and make future predictions, which can invalidate or strengthen the theory.

e.g. we don't even know if the physics we have is universal or local to our observable corner, the only evidence we have is we haven't seen any evidence to disprove it, but that's not proof.

String theory could be considered dogma. But it at least provides means to test its predictions, its just that we are very very far off from ever getting close to that capability.

If we live in an illusion, its entirely possible and in fact likely that it is beyond our ability to even detect that. In fact that would be one of the first requirements of such a 'program'. You can should 'computer, end program!' all you like but the holodeck will just ignore you :)

There really is no point to wondering about the reality of time if it doesn't lead to anything we can test/influence or use to advance our understanding and so far there is none.

You could just say the entire universe is but one of infinite multiverses which are being continuously spawned in the cosmic sea, but that doesn't change anything.