OK, I took your advice and more closely analyzed the 3-row section breaks:
Location=200 seems to refer to the Functional Unit values (CC-200, CC-210, CC-220, etc.).
Description=Apps - Back Office looks like it's repeating the Functional Unit Description values.
Class=Reg is the same for all 100 section breaks and it doesn't appear to be useful for my purposes.
So you're right: I don't need these section breaks.
Since I anticipate receiving the same type of data in future months, I like your suggestion of using Apptio to help automate the data cleanup--so I don't have to manually clean the data in a spreadsheet every month.
I uploaded the file as-is into Apptio.
When I click the Raw Table tab, I see the section breaks.
I also see the Add Data Filters link (in red below):

Using your guidelines, I created three new filters:

Alternatively, I could have created just one new filter, such as: Journal ID Is Not Null
...but this is riskier than your recommended filters, because I might inadvertently filter out important rows.
Your approach is safer because it's more specifically targeted to the rows I want to remove.
After saving the new filters, I select the Transformed Table tab and I see:

Your advice worked, and it set up a good data cleanup automation process for future months.