Margomaps,
You'll find the town rolls the registration (property tax) into the budget... generally under other revenue.
Its delayed one year (revenue was from the previous fiscal year). This is purely managerial in nature, as the town could make it a separate fund.
Tolls go to the turnpike system. A portion of the gas tax goes to State highway and municipal road grants. To my knowledge, no other in-State revenues go to NH DOT. NH, unlike other States, is highly departmentalized with dedicated revenue sources.
The other portion of the gas tax goes to DOS, DES, the courts...