Translators from the wikiproject Medicine have reported issues with references in Content Translation when MinT is being used. The same issues do not occur when Google Translate is being used.
The report is based on the translation of this page into Igbo. A shorter page has been created as a test case. You can use this quick link to start translating it.

Adding a paragraph with references used in multiple sentences to the translation in some cases results in the paragraph added to the translation where for some sentences a given reference is added correctly but for another sentence it is added as a plain text "[1]" without using any template. Resulting in template data getting lost for such instance.
Given that the same reference can be adapted in some cases (which suggests that all conditions are met for being able to adapt the reference), we may need to inspect why that same reference fails to adapt when used in another sentence.

Notice the highlighted sentence in the screenshots below:

Using MinT
Using Google Translate

In other cases, the reference gets added but the "[1]" plain text version gets added too next to it. You can check the highlighted sentence below:

Using MinT
Using Google Translate

The expected result would be for references to be added to the translation.