Originally Posted by
MR_MAMA
They should check your bag all the way through, just make sure you tell the TA that when you check in and check the baggage tags BEFORE you let that bag go.
+1 And it will help the TA if you give her/him a printed copy of your itinerary, especially the 2nd PNR, so that s/he can refer to it while entering the information for checking your bag. Should only be one bag fee.