I suggest you to exclude all resources managed by webshims from grails resources management
In your config.groovy put something like this
def excludeAll = [ 'js/js-webshim/dev/shims/combos/1.jsjs/js-webshim/dev/shims/combos/10.js', 'js/js-webshim/dev/extras/mousepress.js', ... ]
grails.resources.mappers.yuicssminify.excludes = excludeAll
grails.resources.mappers.yuijsminify.excludes = excludeAll
grails.resources.mappers.hashandcache.excludes = excludeAll
grails.resources.mappers.zip.excludes = excludeAll
grails.resources.mappers.bundle.excludes = excludeAll
grails.resources.mappers.csspreprocessor.excludes = excludeAll
grails.resources.mappers.cssrewriter.excludes.excludes = excludeAll
grails.resources.mappers.fontawesomeplugin.excludes = excludeAll
grails.resources.mappers.baseurl.excludes = excludeAll
And remove the resources from the IE6_8 module. In IE6_8 module put only base modernizer and polifill files, not other resources.