Nios SDk Shell can't display my inputs

It's a different flow for developing on uCLinux. The binary format is even different: FLT versus ELF. You might want to take a look at the nios wiki (http://nioswiki.jot.com/) for further info.

As far as your situation, you'd have to download your application to the running uCLinux system or, alternately (and better, I might add), you could just copy your executable to an NFS share on your host computer. [EDIT] Or...add your application to your file system.

Best of luck. I think there's a sample "Hello World" app. that you can try.

Cheers,

- slacker

P.S.: Though others have stated it here, you ought not to be using Windows to develop a Linux (or in your case) uCLinux application.... If you're going to develop for uCLinux, might as well work on a similar host!