Yes, from your description they appear to be tuition and may qualify for the American Opportunity Credit (AOC). However, there are other requirements to qualify for AOC. Enter the 1098-T into TurboTax and the program will determine if you qualify or not. 

Qualifications for claiming the American Opportunity Tax Credit are:

• You paid qualified education expenses for higher education (see Related Information below).
• You paid education expenses for eligible students.
• The eligible student is you, your spouse, or a dependent for whom you claim an exemption.
• Your modified adjusted gross income is $90,000 ($180,000 if married filing jointly) or less (The credit is reduced between $80,000 and $90,000 ($160,000 and $180,000).
• You must be taking courses at an eligible education institution, which is any college, university, or vocational school with a student aid program administered by the US Department of Education.

You must be considered an eligible student:

• You're enrolled at least half-time in a program leading to a degree, certificate, or other recognized credential.
• You had at least one academic period beginning during the year.
• You did not use the American Opportunity Tax Credit for more than three previous years.
• You didn't complete the first four years of post-secondary education before the beginning of the year.

You aren't eligible to claim the American Opportunity Tax Credit if:

• Your filing status is Married Filing Separately.
• Taxpayer is listed as a dependent on another person’s return.
• You and your spouse were non-resident aliens.
• You have a felony drug conviction.

Related Information:

• What education tax credits are available?
• What expenses qualify for the American Opportunity Tax Credit and which ones do not?
• Who is eligible for the Lifetime Learning Credit?
• What expenses qualify for the Lifetime Learning Credit?

Source: TurboTax FAQ

We meet all the other requirements. I guess my real question was whether part or all of the fees for the course might be considered to include transportation expense, which is not considered a qualified education expense (QEE). The fees helped cover plane fare and lodging, which I consider travel. Is there a distinction between travel expenses and transportation expenses? Can I rely on the school properly classifying the entire course fee properly in Box 2 as "qualified tuition and related expenses"?

if this makes it any easier on you, once Box 1 (you stated box 2, but did you mean box 1?) is over $4,000 it doesn't matter.  you'll get the $2500 AOTC credit.  Anything beyond $4000 in box 1 has no impact

are there other 1098T from other colleges?