Not exactly, the explanation is that once the bubble bursts and the time lines sync, this does not magically rubber-band the memories of the Inquisitor and companions. There seems to be a presumption that changes to a timeline are going to alter the memories of the Inquisitor, which does not need to be (nor does it seem to be) the case.
It's like if I met John Malkovich on Tuesday and he invited me to his Pokémon tournament on Thursday, and then on Wednesday, Steven Dorff travelled back in time to Monday and trapped John Malkovich in a time bubble and prevented him from leaving. Now, as far as John Malkovich knows, he's never met or invited me. But I still remember, because this change is not global, it only effects the people in the bubble.
So, on Thursday, I show up ready to pwn some n00bz and Malkovich is all like "whaaaat?" and Steven Dorff jumps out of nowhere and we have this totally awesome kung-fu showdown and I break every bone in his body with my Muay-Thai and that releases the time bubble.
Now the timelines are back in sync, but this John never experienced meeting me and so does not remember. However, I still remember meeting him, even though we now exist in this shared timeline. Essentially, he both did and did not invite me to the Pokémon tournament.
It's exactly like that.
Monday A: Malkovich organizes tournament Monday B: Dorff traps Malkovich in time bubble.
Tuesday A: Malkovich invites me to play Tuesday B: Malkovich waits helplessly in bubble.
Wednesday A: Dorff travels back to Monday, creating Monday B Wednesday B: More waiting
Thursday A: I burst the time bubble, syncing timelines Thursday B: Now the timelines are synced
Friday Prime: Dance Party