Well, as a general solution for any gishes, as some have said before, wraithstrike + PA is the usual gish damage source. I'm pretty fond of Arcane Strike even for maneuver based gishes, as it applies to every attack for the round, even OAs. It's somewhat redundant with the JPM ability, but that's less powerful IMO.
Transmutation Focused Specialist, as everyone has said, is perfectly fine even without polymorph.
For race, Illuminian is great for some goodies, including extra casting level without having to resort to Practiced Spellcaster and use Str instead of Int for extra spells, which is a great way to avoid MAD if you don't focus on CD based spells -you just get a 13-15 base int and increase it through magic items.