More than one e-way bill?

No....
You can use the Option CKD/SKD .
Raise a single invoice for the supply of goods, though getting transported via different vehicles
Raise delivery challan for each of the vehicles drawing reference to the invoice number (same for all the delivery challans)
Each Vehicle to carry delivery challan along with the certified copy of the invoice
Eway bill to be generated for every delivery challan generated for different vehicles.