Did you notice the brackets around the footnote reference numbers in the Register report? This quickly differentiates a footnote reference from a generational number, but it's another thing that cannot be programmed into TMG's output. It's very easy to create a Word macro, though, that reproduces these brackets with a simple keystroke. It doesn't take long to go through the report and quickly add these brackets to each footnote reference number.
There are some differences between this report and ones created automatically by TMG that can only be corrected by manual editing. The most significant, in my opinion, is the fact that the vital events in a person's genealogical summary follow this order in all publication style reports: birth, death, burial, followed by marriage, then birth and death of spouse. TMG's genealogical summary output is controlled by the sort order, which is chronological by default: birth, marriage, death, burial - and spouse events are written in a separate paragraph. There are cumbersome ways to get around this, but I'm a lazy person and find it easier to simply edit my report. This topic has been discussed on the Wholly Genes forum, and readers might find it interesting.
TMG produces the correct typography in the parenthetical lineage lists: italicized names and standard type for generation indicators in Register format, standard type for names and italicized generation indicators in NGSQ format. In the latter format, generation indicators are attached to the given names of all persons listed in a parenthetical lineage list, and TMG reproduces this correctly. In Register format, this generation indicator is placed after the birth surname of a married woman. This must be manually edited in the final report, if one wants to faithfully reproduce the Register format.
I use TMG for its database and analysis features, but there are many users who love exploring ways to make TMG create the perfect narrative. One of the best online examples is the study done by Terry Reigel. His report, "Producing a 'Publishable' Article," compares an actual NGSQ article with a TMG report reproducing that article, and it covers the problems he encountered and the solutions he discovered. If you want to produce a "publishable" article, you must read Terry's report.