I am currently using UniAdmin to manage useful addons for our guild.

Myself and a few of our members also use the WoWAce Updater with the options set to Without Externals so that the embedded libs in the different addons get installed as their own addons rather than in a "libs" folder in the addon.

I think that made sense.

This basically means that rather than loading each library multiple times as individual addons load it, they are all loaded at the begining and the addons that use them share them.

Is there any way to do this in UA?

The reason I want this ability is that when using WAU in this way if an addon is installed that has an embedded version of a library that already is installed on a persons system as described above it will cause errors and not work.

Thanks in advance for any help

No, UA just gets the compiled zip files and those have the external libs embedded in them

This is a good idea to add to UA though
We plan on working on UA when Roster 2.0 goes final