The only people that seem to be having issues are those doing back to back Visa Exempt with or without extensions each time. You have a visa. You will be fine.
They do seem to be inconsistent. A guy in the Chiang Mai Expats group had his frozen at the Airport Plaza branch on a O Retirerment Visa. Needs passport certified by Embassy to unfreeze it. Crazy.
They are tightening up on people using Visa Exempt and Tourist Visas to reside in Thailand - they are checking that people are tourists and not residents. There are visa options available.