khutchinson_splunk,
I want you to know that I had been racking my brain on this for three days until I finally ran across this post. Even though nearly two years later and version 6.1.6, I hit the EXACT same problem after an error caused the rollback to fail except splunkweb and not splunkd service was causing the error (I believe vince2010091 was alluding to that fact). Splunkweb got deleted leaving only splunkd. Manually deleting the splunkd service via command line and rebooting allowed me to successfully upgrade to v6.1.6.
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