For anyone else who has tried everything and finds this thread...
If you have tried:
Safe Boot
Check in Different Admin + Guest Account
Copy in a known good 'Displays' Pref Pane
Permission Repair
SMC / PRAM Resets
Delete Display Prefs
Delete Display db's
Use 3rd Party Res Switcher
Use 3rd Party Display Rotate (did work but only to the point it would bring up the non-retina pane - quit and reopen sys prefs and the issue reverted)
...and nothing has worked (but not yet done either a system restore or re-overlay from Recovery)
What will work (and is not quite as invasive/daunting for some as the System Restore Options) is a 10.10.4 Combo Update. Download, Install, Repair Permissions and you are done.
For Reference:
My issue was caused due to a bug when updating to the 33b and 36b beta builds from either the quarzi 10.10.3 (2xxx) or the 26 beta build of 10.10.4 on a MBP11,4. The issue was resolved in the 46 release version of 10.10.4 but not in the delta update. The Combo update resolves.... As to exactly what is causing this or, indeed, the file/pref/config that is at the heart of the issue - afraid I am uncertain. Normally I will work till I get the answer but as this is such a rare issue for myself and a simple fix has been located - I will not be putting any more time into it.
Hope this helps anyone googling to get a solution...