Why rinse flask with distilled water when the flask will be used for storing aliquots of HCl for titration?
The dilution with excess water won't affect the total amount of $\ce{HCl}$ in the solution, which is what you will be titrating. You still know how much $\ce{HCl}$ you have from your quantitative addition of the $\pu{1 mL}$ aliquiot. If you rinsed with $\ce{HCl}$, you would have no idea how much $\ce{HCl}$ you really had and therefore you couldn't calculate the concentration of your $\ce{NaOH}$.