One of my student, Marco Furlan, wrote enterely his PhD (and master) thesis with TeXmacs:
https://tel.archives-ouvertes.fr/tel-01864398/document
With others we wrote papers in TeXmacs and for one reason or another the final composition of the thesis has been done in LaTeX.
Miguel de Benito also wrote his thesis direclty in TeXmacs:
https://mdbenito.aerobaticapp.com/0372_1df83ac9-8582-4a11-83dc-701c2828288d/files/math/phd-thesis-dbdb9f6.pdf
Usually I manage to convince younger collaborators to use TeXmacs, for example the following papers have been written enterely in TeXmacs with a very late conversion to LaTeX to put them in arXiv:
https://arxiv.org/abs/1805.10814
https://arxiv.org/abs/1804.11253
https://arxiv.org/abs/1812.04422
https://arxiv.org/abs/1810.01700
https://arxiv.org/abs/1810.12014
https://arxiv.org/abs/1807.06825
https://arxiv.org/abs/1708.03118
https://arxiv.org/abs/1610.07886
https://arxiv.org/abs/1502.00157
https://arxiv.org/abs/1508.07764
https://arxiv.org/abs/1508.03877
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