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I'm not particularly surprised that Cywgin and mklib don't play well together; this combination was a rich source of complication in the design of mklib. This is certainly a bug that needs to be addressed, but you may just want to use the workaround of running mklib directly from outside of CCS. Change into the compiler's library directory and execute the command "mklib --pattern rts430_eabi.lib --index libc.a", which will build the library. After that, CCS should not attempt to build it again.
Here is a related thread with similar errors due to cygwin. Maybe the suggestions there can help you workaround the issue.
http://e2e.ti.com/support/development_tools/code_composer_studio/f/81/p/145966/529658.aspx#529658