Element not removed from toctrees

[mscheltienne]

Describe the bug

In mne-lsl, one of the elements is not removed from the toctree anymore for some reason.
No changes beside sphinx and sphinx-remove-toctrees versions.

See the toctree on the left of this page: https://mne.tools/mne-lsl/stable/api/index.html
Where mne_lsl.sys_info appears.

Corresponding rST file is similar to the others: https://raw.githubusercontent.com/mne-tools/mne-lsl/main/doc/api/utilities.rst
And configuration does remove that unique API folder: https://github.com/mne-tools/mne-lsl/blob/f88dd7bf27b2825be1da0e1d1e65e5d1a19e98d1/doc/conf.py#L289

Pinging @agoose77 who maintained the package recently.

Version used ares available in the Display System Information step of the workflow: https://github.com/mne-tools/mne-lsl/actions/runs/9388354166/job/25853407538

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[mscheltienne]

And I will add that this problem is due to the changes from @agoose77
Works correctly with commit 28f26a3 and sphinx 7.3.7.

[njzjz]

I got a similar behavior where some pages are not removed:

The original TOC is not organized like this: