If you pick a base character then the prime gets removed as well, the better version cant exist without the base version, however if you remove a prime version then the base character can still exist. My personal pick would be Valkyr due to how [IMO] useless she seems
The post description sounds like it means “Warframe”, but I’d be really interested to see what the story would be like without Ballas, the single big bad orokin who personally caused so many of the events of the plot. I’m more interested in the aftermath of the orokin system than the villainy of one man.