A little feedback: Advanced mode - I'd most likely use this. I think this is quite important, and opens up the possibility or using Github, Bitbucket, or privately hosted git repos.
You keep saying "PIN". Could that actually be any passphrase? i.e. why limit it to numbers, or limit the length? I'd typically use a random string generated by Lastpass. How about https with auth? I know it's not intended for use in a corporate environment, but some people could have trouble with SSH through firewalls. Also, wouldn't this be a simpler option than downloading and decrypting keys (which seems to somewhat defeat the purpose of using PKI in the first place, as it has essentially become username/password auth). Otherwise this sounds excellent.
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