I am not sure what is causing your problem, but you can flash cwm using the DD method(aka the adb method) (from junkie2100's post on the cwm thread)
adb push (name of the image file) /sdcard/cwm.img
adb shell
su
dd if=/sdcard/cwm.img of=/dev/block/mmcblk0p13
OR:
http://androidforums.com/warp-seque...-how-install-cwm-using-terminal-emulator.html
the second method skips the computer altogether
adb push (name of the image file) /sdcard/cwm.img
adb shell
su
dd if=/sdcard/cwm.img of=/dev/block/mmcblk0p13
OR:
http://androidforums.com/warp-seque...-how-install-cwm-using-terminal-emulator.html
the second method skips the computer altogether