The story on pins 3, 9, 10:
Each of these pins has two functions. An input function and an output function. The input function is ONLY relevant at power up. The high or low value is sensed and remembered by the chip. After the inputs are sampled and recorded, the pin assumes its normal output function. When the pin assumes its normal output function the input resistors have no appreciable effect on the output pin.
The data sheet recommends a 100K pullup resistor, and a jumper to a 2.2K resistor to ground.
Question: if the jumper to the 2.2K resistor is open, what will the voltage at the pin be?
Extra Credit: if the jumper to the 2.2K resistor is a short, what will the voltage at the pin be? Hint: use the voltage divider formula.
Does that answer your question?