This problem can not be solved,because it's driver and hardware problem relate USB,unless you can modify driver or buy new hardware,you should wait for Apple fix
The developer release notes for El Capitan warns
USB storage devices, including internal SD card readers, may become unavailable after system sleep and require either re-plug or restart to recover.
USB input devices may become non-functional on some Macs after several days.
USB 1.0, 1.1 and older 2.0 devices may not function.