How many of different types of chemical species are in a certain volume of aqueous solution of an acid
The following is an approximate calculation, since among other things it makes the approximation that the activities of each substance are equal to their molarities, which is not true in such concentrated solutions. Also I take some shortcuts to make the calculation quicker.

Let's look at a volume of $1\ L$. The mass would be $1323\ g$, 98% of which ($1296.54\ g$) is due to the acid, and 2% ($26.46\ g$) due to water. This initially translates into $10.36\ mol$ of acid, and $1.47\ mol$ of water. However, some of the water and acid are consumed to create hydronium and conjugate base. 

To calculate the dissociation of the acid, you may want to apply $K_{a}=\frac{[H_{3}O^{+}] [A^{-}]}{[HA]}$ (the Henderson-Hasselbach equation is derived from this by taking the log on both sides, so they're equivalent), but this is actually a very bad approximation, since you need to take into account the concentration of water in non-dilute solutions. We'll do it anyway and I worked it out to be $[H_{3}O^{+}]=[A^-]=0.704\ mol.L^{-1}$. Since the volume we're working with is $1\ L$, that means $n_{H_{3}O^{+}} = n_{A^-} = 0.704\ mol$. Subtracting those amounts from the initial amounts of water and acid, we reach $$ n_{H_{2}O}=0.77\ mol$$ $$ n_{HA}= 9.66\ mol$$ $$n_{H_{3}O^{+}}=n_{A^-}=0.704\ mol$$
To find the actual number of each entity, just multiply by the Avogadro number $6.022\times 10^{23}$ and you have the amount of each in a litre of solution.