I do not have this trouble when using documents generated through latex (with the package hyperref).
As I posted in a previous thread, what it is not working in the IrexDR1000S are hyperlinks to other pdf's, but up to now I haven't had any trouble with hyperlinks pointing to the same document.
For instance, you can use the IrexDR1000S manual (as far as I remember the first or second page is somehow a table of contents) to check that the hyperlinks are working (or not) in your device.
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