It effects the actual playing of the game, as in, it would be an 'overpowered' mechanic.
One moment, you're fighting someone in a titan, possibly beating them, the next, they've set down a 5 block station and you can no longer touch them. That this makes for broken gameplay, should be quite clear.
Once stations no longer make the ships docked to them invincible, this idea could be revisited. But currently the docking enhancers are a thing we need to prevent this blatant type of abuse.
In general, I'm against making a single block so powerful, that it could allow any object to dock with it. The necessity for supporting systems promotes expanding a docking area and decorating it, somewhat.
Also, if you remove average docking enhancers, then what about turret docking enhancers..? Should you be allowed to dock any size of turret to any size of ship? Do you believe this type of thing wouldn't simply break the game even further, and promote people to dock ridiculously large turrets to tiny ships?
Keep enhancers. Possibly rework them to consider mass, in stead of dimensions.. But keep them.