Top Teams can afford top players, that's the way BB is designed, others can't. Top teams right now can have a roster of 550k-600k salary, so they do have the salary space to have 1 or 2 awesome NT players in their starting lineup.
Since BB is still looking for it's equilibrum, thus still involving, I expect (certainly with the new merchandise changes) that top BB teams will be able to support an even larger team salary in the next few seasons.
Apart from this, farm teams will still exist and won't dissappear, just as in HT. Compensate teams who got NT players with a salary refund, will just lead to more powerfull farm teams, since they can pay the player more weeks, thus the farm team will go bankrupt later. I don't think such a compensation will lead to more NT players at more 'normal' topteams.
In BB it's just impossible to keep a 250k player for several seasons in the D3 or lower, so farm teams here are less effective than in HT.