Alright, so I've been doing some testing with a fresh copy of both Rejuv and the Battle Bond mod and I cannot seem to replicate this issue that you both seem to have. Every time Greninja uses Battle Bond, it reverts back to its base form after the battle ends. The only ways that this could possibly be happening is either the downloaded must've corrupted somehow or you both must've edited something in the Battle Bond Extended Rejuvenation.rb script.
Update on this for anyone else looking for a fix. I experienced this exact problem today and its a conflict with the battle speed up mod from the QoL 13.5 modpack forcing it to stay in battle bond sprite
Rejuvenation v13.5 - Battle Bond!
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Update on this for anyone else looking for a fix. I experienced this exact problem today and its a conflict with the battle speed up mod from the QoL 13.5 modpack forcing it to stay in battle bond sprite