There were several good reasons why Alexander decided to take a three day break before marching towards Caira.
One of them was indeed due to what he said- resting the troops.
Menes had literally docked the very morning Metztil arrived and after being at sea for almost two weeks, those legionaries needed some time to recover their tired bodies.
Many of them had even gotten seasick or suffered from illnesses like fever or dysentery.
And since there was no overwhelming pressure on Alexander to act right away, he did not see any reason to rush his men and let them get used to the new place.
Secondly, some time would inevitably be needed to unload the huge quantities of supplies these reinforcements had brought.
This was also why Metztil got to see the camp in such disarray, with people moving various goods hurriedly.
They were moving them to their storage sites and in general setting up the whole camp.