Is there a sin upon one who works in a company that sells invoices and records quantities, if he later comes to know of the sales team's deception of customers and their bribery of drivers to conceal damaged goods, and must he leave the job?

There is no harm in your work as long as it is free from deception and fraud, and you have no connection to theating others. It is commendable for you to advise those who commit such forbidden acts, clarifying for them their dire consequences. For truthfulness is the path to profit and blessing, while deception and lies obliterate blessing.