I don’t know. I kinda feel like this situation is analogous to when a new edition of a textbook gets released. The prof changes the required text. The students complain because it will cost them money (time in re-learning their respective number of radicals). The prof begrudgingly allows students to use the old textbook, but tells them that all of the page numbers will be based on the new textbook.
The students who shell out the money (re-learn the radicals) face hardship up front and smooth sailing afterwards. The students who want to save some money (hold onto their mnemonics/radicals) avoid the initial discomfort, but will then have recurring discomfort every time they go to do a reading because they’ll have to find everything on their own.
WK seems to have chosen choice - which feels like conscription - over prescribed change. Considering the number of people on these forums clamouring for change of one thing or the other (more kanji, more vocab, etc.), it’s probably for the best they didn’t spend too much time worrying about a seamless transition.
By the end of level 60 you’ll have learned 8804 (by wkstats.com’s count) items - the few (or couple dozen, whatever) radicals you’ll have to relearn are but a small fraction in the grand scheme of things. I’d say just bite the bullet
P.S. Small sample size I know, but I’ve personally found the new names to be beneficial.