You can download the FX3 SDK for linux. The fx3_firmware_linux.tar.gz: contains the FX3 firmware library and examples. Cyusb_linux_1.0.4 contains the functions which we use for communicating the the Linux host. These functions are based on the libusb package. Please find the linux guide here http://www.cypress.com/file/138786/download
Which firmware are you running on the FX3 ? We have seen throughput upto ~425 MBps for Bulk In tranfers.
Regarding FW we are using the 'SF_streamIN.img' with FX3.
We have tried running 'Cyusb_linux_1.0.4', but were not able to simulate throughput.
Is it normal that the Driver section in lsusb -t is empty?