The only ones I have more or less renamed are my Angel Strarf Bis and Devil Arnval Tranche.
Angel Strarf Bis is called T+C, which is my nickname since I'm using Angel Strarf Bis as my toy avatar.
Devil Arnval Tranche has renamed herself as Devon, so she's not to be confused by the regular Arnval Tranche.
If I ever get my hands on any other Shinki repaints, as well as the prototypes of Partio and Pomock plus the exclusive versions of Howling and Mao Chao, then I'll rename them. Otherwise, I just call my Shinkis the names they've been given.