No, currently AGCEEP only has 1 complete set of shields and that is the enhanced set. Unless you want to try Plus Ultra (AGCEEP) with the different map. That has only glory shields and none else.
I experienced a similar problem because I changed between playing different mods that have different sets of shields and FtG always tries to use the last set of shields used - e.g. using glory shields in AGCEEP because I had started a vanilla game with glory, using enhanced shields in PV because I last used enhanced in AGCEEP...
I started to force the game to use only 1 set of shields that actually exists for every mod like this:
http://forum.paradoxplaza.com/forum/showthread.php?577866-Plvs-Vltra-Downloads/page7
I only asked because you mentioned installing AGCEEP over a 1.2 install and then installing the 1.3beta so it might have been that you had used the old 1.59b4 of AGCEEP for FtG 1.2.