When it comes to Shared Coordinates, the Publish Coordinates tool is disabled. Acquire Coordinates does work.
As I understand the issue, Publish Coordinates is the only time that Revit has to be able to write changes to a linked file. The current A360 and C4R infrastructure doesn't support allowing that to happen...yet. They do understand it is something we want and need to do.
Regardless I'd still use Acquire Coordinates on a source survey file within a Master Site file, as usual. Then I'd link any building files and position them on the site, just like I'd normally do. To cope with the loss of Publish Coordinates I'd put location markers (a unique family for example) that allow me to figure out how to link and align Master Site in each building correctly afterward.
As I just mentioned, in each Building file I'd link the Master Site model and move, rotate and elevate it as required. Then I can use Acquire Coordinates and pick Master Site. This will pull the correct Shared Coordinates into the building model. I'd repeat that for each building.
I'd do the little building position dance in Master Site even though I could probably figure out how to do the reverse (position Master Site in each Building) somehow. I'd find it a little easier to work out each building's relationship to the Master Site model this way, seeing them all together at the same time in Master Site. I think it provides for better context.
When other trades get going they just need to link the Architecture model using Auto - Origin to Origin and then use Acquire Coordinates, picking the Architecture model. It's a cascading nested understanding of the survey coordinates, using Acquire Coordinates all the way down.
SMEP-Models - AC from - A-Model - AC from - Master Site - AC from - Site Survey
When they return their files to the architect they just need to be linked using Auto - Origin to Origin too. Technically if they do use Acquire Coordinates using By Shared Coordinates would work but if they didn't Auto - Origin to Origin is reliable...as long as they understand it is important that they start out using Auto - Origin to Origin themselves, when they link the architecture model.