the "no due process" argument is of course a smoke screen. The reason they didn't approach them initially is because it was thought the Baku were primitives, and pre-space contact.
Once it was clear they weren't, it was only because of poor writing that negotiations for compensation and removal didn't begin. ( and because they wanted to avoid a "baku say no" scenario.)
And those arguing against removal aren't really going to change positions if the Federation had approached the Baku and been blunt about evoking eminent domain.