It's fine if the Innovative Architecture Structure is in the same Circle as Stacks of Building Units.
It's fine if the Innovative Architecture Structure is delivered to a circle at the same time as Building Units.
Other interesting facts about the Innovative Architecture Structure:
The Innovative Architecture Structure is Equipment (Rule 02, Rule 05, Update RG18)
If the Innovative Architecture Structure is touching something at the end of the match, then that something is not Independent (Rule 33)
Many Missions require that Mission Models are Independent in order to earn points in those Missions.
Steve Scherr
Virginia-DC FLL Referee Advisor