Many people pronounce it "Исус" indeed. But there are educated people who pronounce it "Иисус" with two "и" sounds. I would say both pronunciations can exist, "Иисус" being the preferred one, and "Исус" being widely used as a common simplification.
Here I would not agree. I would never say [ироглиф], only [и-йи-РОГ-лиф].
As to the pauses inside a word - yes, it is a nonsense, I agree.