Currently, (0.98.6398) File> Save as offers to save the file in various formats. Both format and location are used for subsequent Save commands (Ctrl-S), see issue http://en.smath.info/bts/Issues/IssueDetail.aspx?id=1250
The Proposal is to
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Restrict the Save As options to loss-less file formats, from which the document can be opened for edit.
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Add a menu entry "Export", where all the other formats are offered and the preset for format and location/name is what was exported before.