link between acidity and [H3O+]
$\mathrm{pH}$ is a measure of acidity but defining acidity as the concentration of dissoluted protons in solution. This is quite a bit different from defining acidity as the amount of acid in solution.

Taking your example, the appropriate concentration of $\ce{HCl}$ would be something like $1~\mathrm{mM}$ while the corresponding acetic acid concentration is maybe $1~\mathrm{M}$. (These numbers are most certainly not correct, and maybe even the dimension is off by one or two orders of magnitute, but they can still serve well as an example.) So you could say ‘but there’s one thousand times as many acid molecules in the acetic acid solution!’

When considering the actual effects of an acid, the concentration of the original acidic species is irrelevant. Vinegar is, for example, usually $5~\%$ acetic acid and can be added to food (tough guys might even drink it) — I wouldn’t try that with $5~\%~\ce{HCl}$ since that contains a much higher active proton concentration.

What you can do, though, is consider the higher concentration of weak acids a type of buffer: Dilute acetic acid and the $\mathrm{pH}$ will hardly change while diluting $\ce{HCl}$ will have an immediate effect on $\mathrm{pH}$. So a weak acid can supply the same weak source of protons for a longer time.

And even though real-world analogies should be avoided in any case since they often give a wrong impression: If you jump down the staircase of a high building two steps at a time there will be likely no effect (small effect but buffered — acetic acid) just like if you only jump the two steps once (small effect unbuffered — strongly diluted $\ce{HCl}$), but if you try to jump the whole staircase (large effect unbuffered — $\ce{HCl}$ in the same concentration as acetic acid) you won’t remain unaffected.