The difference between what some employees believe is their total compensation and what the company believes they are being paid also may come down to accounting rules. Amazon said that if employees in 2018 get stock that was granted to them two years ago, that legally counts as compensation this year. But some employees believe that was compensation for work done two years ago.

The difference — whether because of miscommunication or incomplete information given to employees — has resonated in Amazon warehouses around the country, particularly with employees with a longer tenure at the company.

The dispute is over two compensation programs that will end on Nov. 1. The first, the Variable Compensation Plan, is paid out each month. It offered up to a 4 percent bonus for attendance, and an additional 4 percent if a worker’s building met certain production goals.

Ms. Iber said someone in her warehouse wrote “BRING BACK VCP!!!!” on a whiteboard where employees are encouraged to communicate with management.

In the three months around the holiday season, known as “double down,” the bonus doubles, meaning employees could earn as much as 16 percent on top of their regular wages.

The second program gave employees shares in Amazon stock each year. They get to keep the shares if they’re still working at the company after two years. Recently, employees have been getting two shares, worth about a combined $3,725 at the current market value. With the changes, workers get to keep the stock granted in previous years but will not earn new shares.

Documentation that Ms. Iber provided showed that her bonus amounted to $1.28 an hour in August. In the three months around the holidays, that could be more than $2.50 an hour, far more than the $1-an-hour increase in base pay she’s getting.