I have one datastore on 4kB-sector drive for a year, it works without any problem. Maybe it is because most of 4kB-sector drives support 512B-sector emulation...
BTW, this all applies to SATA-drives only. SAS-drives can have different sector-size (520B, 528B, etc). Those extra-bytes are normally used rather for checksum not data, but this strange sector-size is still reported to OS...