Even if we ignore the issue of permits altogether (and, yes, I think permits are an issue), there are still 2 problems here.
1. The Endymion is practically a lower BR, better version of the Indef, which is also a permit ship.
2. The Endymion is in many ways better than the Trinc, which itself is better than other 5th rates. In an fight between Endymion and any other 5th rate besides the Trinc, Endymion has a huge advantage.
So in the end, Trinc and Endymion are both go-to ships for 5th rates, which means to create more variety we need to either nerf them or buff the other 5th rates.