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A possible workaround is to use the filecontents LaTeX package in order to :

• define in the main file the contents of a sage file in the working directory
• use it in a sagesilent block where needed,
• cleanly typeset in the appendix via lstinputlisting or minted.

It is not a perfect solution (the typesetting parameters used by minted or lstinputlisting need to be tweaked to get something "close to" the result of sageblock, but the consistency and ease of use are obtained : there is a single source for both the paper and the associated computations.