Isn’t /feed/rss the rss1, while /feed the rss2 (the wp default)?
For the upgrade message, delete the .maintenance file in your site’s root dir, and do a manual upgrade if the automated one failed.
Re the deleted post, do a hard refresh. The expiry date of your feed might be erroneous or something like that, and a proxy or your system might be using a cached version of your feed indeed.
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