When viewing the profile in Mac ColorSync utility, I can see two points that look like the scanner misread them.
When you say "scanner" I assume you mean "measure using a print measuring instrument".
There is a way of figuring this out, but it's quite a manual process.
You run profcheck -v2 -s on the .ti3 and the profile. The first
result will be the patch with the biggest disagreement. Note the sample ID (integer before the ":").
Look at the .ti2 file, and locate the line with the sample ID. Note the SAMPLE_LOC - that
tells you which strip to re-read. chartread will let you navigate to the corresponding
strip and re-read it. (You might want to backup your .ti3 before you try this.)
You might want to re-read any other strips that contain patches with high delta-E
as well.
Re-make the profile and check the self-fit error. It should have dropped.
If you think you have got all the mis-reads, try your test print again.