It indeed seems that we simply have entirely different goals with the recipe. I completely agree that an archive would be great, and can understand your point about having the patch that would allow Calibre to do this. In contrast, I use Calibre to just read the current version on my Kindle and was very grateful for your recipe (the version currently available in Calibre), because it allows me to do just that. The only problems were a bunch of issues, some of which the adjusted recipe solves. That's why I provided it here for others to use if they want. But I also agree with you that some parts are not implemented well and the output processing for the shortcomings for the mobi/Kindle format (subscripts) should indeed be handled in the respective module, maybe with the possibility to enable or disable it in the conversion options (like the left margin). Maybe David can add this functionality eventually.