NF question - running the baseline

[That Don Guy]

This was from a Northern California championship game (involving the HS Jason Kidd went to - they came back from something like 18 points down with 3 minutes left in the game (yes, that's 18 points in the last three minutes) to win at the buzzer).

B1 makes a basket.
A1 throws the ball inbounds, but B2 kicks it, and the officials call a violation.
A1, on the subsequent throw-in, attempts to run the baseline, but is told that this is a violation, and the ball is turned over to Team B.
Is this the correct call?
What if the first throw-in touches the floor (but not a player or an official) before being kicked?

(I know in NCAA, Team A is allowed to run the baseline again - but is the rule the same in NF?)