--- Quote Start ---
I am currently looking into a USB option with NIOS and I came across this post. I looked up the ISP1362 but it doesn't seem to be sold by phillips any more. Can this design be adapted to some other USB controller that is more available ?
--- Quote End ---
I dont see why not - the devreq.vhd is generic to a subset of USB 2.0 spec - so no changes needed. Depending on the device you choose, you would need to update hal.vhd to the specifications of the bus interface of the new device, and finally drv.vhd configuration and interrupt handling sequence.
To reduce the amount of work, I suggest trying to find the ISP1362 from sources like
alibaba.com, or contact Phillips and ask them what device they currently sell that implements similar functionality that is most related/or derived from ISP1362.