Firstly, based on the experiences reported with this, I don't think the issue is the plugin. And I can't think of a way to use the plugin to resolve this. The latest beta version will have no effect on this. It fixing errors in how the dialogs work and in this case, it is after any interaction with the Goodreads site.
What I think is that Goodreads is seeing to many requests of some sort and throttling you. I don't know exactly what it is counting and how it is grouping the counts. But, I think the latter is the important bit. It could be grouping the requests on Goodreads user name, IP address or subnet, the developer key in the plugin, the actual request or something else I can't think of. And of course if could be a combination of any of these. And then we don't know the time frames involved for either starting to block someone, or unblocking them. And if you are being blocked by them, then chances are that trying again before being unblocked will extend the block more.
About the only thing I can suggest to try is to go nowhere near Goodreads from your IP or account for a few days. Then try the shelf sync or whichever function is causing the problem first. And then wait a few minute between each interaction with goodreads. If the error still happens with this, then there is probably nothing you can do.
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