Missing data and empty folders since android 4.4
The problem is due to android now using F2Fs format for the SD card. Data restored by google or a backup program will not be read. Restoring from a PC is of no help.
My FAT32 card still works perfectly well in 4.4.2. Apps write data to it, the PC writes data to it, and I've never lost any data or had "ghost" folders appear.