For me, All external HDD work fine on Mavericks with or without WD software (for a week).
*But the problem start after I turn-on Time Machine and start first backup after upgraded to Mavericks, all data 4 partitions on my external HDD(with Time Machine backup partition) wiped out and show itself as new one!
I think the killer is not WD software but The Time Machine on Mavericks + Mac extended journaled.
Anyone can confirm that your problem start after Time Machine backup, and only the External HDD with Time Machine Backup? (or not?)