No, the Mitsubishi factory ALWAYS had to assemble, disassemble, cart with pack animal, then reassemble every single Zero they built from the very first one. This was not a response to US bombing, it was gross inefficiency.
In fact, they recognized it, then Nakajima ended up building most of the Zeros. They could have increased production just by knocking down some buildings, but they didn't want to harm some old, historic neighborhood apparently...
The USAAF had no problem knocking down the historic neighborhood, so they should have builldized it before the war started anyway