I also have my reservations about the historic routes being part of the essential to completion
'essential', 'completion'. It is you who have invented and defined those concepts. They aren't concepts of the site, but concepts of the game you want to play using the site. You can easily define them differently.
Sure, the oft-discussed proposal to hide systems users don't want would make it easier to keep score by your rules, and long ago it was decided to hold of with usaush so that it can be simply excluded by looking at the active-only stats rather than the harder (but still not hard) having to open the region stats page which gives you a per-system lowdown.
Should we make it easier for users to play games as part of mapping their travels? Absolutely!
Is the existence of systems you aren't interested in stopping you playing the game you want to play currently? Absolutely not!