[Semi-] Automatic Conversion of Footnotes <-> Endnotes
The newest Quark XPress update addresses this issue excellently! Maybe it's time to leave Indesign for Quark. Here's what Quark has done:
Word Import enhanced — The Word import filter now supports explicit options to include/exclude Footnotes, Hyperlinks and Pictures. You can also import Footnotes as static text at the end of the story flow and import Word tables as native QuarkXPress tables.