Bit late... Software clean only cleans up old files from packages not used, no txt files or others are removed, also it will show files it is going to delete and you can abort. https://www.cisco.com/c/en/us/support/docs/switches/catalyst-3850-series-...
Inter Vlan routing works fine, at least for WS-C2960X-48FPS-L / 15.2(2)E7 / C2960X-UNIVERSALK9-M:
Switch#sh ip routeCodes: L - local, C - connected, S - static, R - RIP, M - mobile, B - BGP
Gateway of last resort is 10.0.0.254 to network 0.0.0.0
S* ...