The Complete Solution
I asked Henri Cohen for an answer and he was kind enough to email the following answer:
"By simple algebraic manipulations one can find a solution as a rational
function of the area $n$. For instance
$a=(2n-1)/2$
$b=n(4n^2+4n+5)/(4n^2-1)$
$c=(20n^2+4n+1)/(2(4n^2-1))$
"
So, for area $1$, we have rational triangle lengths $(1/2,13/3,25/6)$
For area $2$, we have rational triangle lengths $(3/2,58/15,89/30)$
For area $3$, we have rational triangle lengths $(5/2,159/35,193/70)$ and so on.
The easier question remains. What "simple algebraic manipulations" is he talking about?
The first equation gives us the rational side $a$ for every integer area $n$.
The sequence for side $a$ is ${1/2, 3/2, 5/2....}$ for the integer area sequence
$1, 2, 3....$
Solving the first equation for $n$ and plugging the answer into the other two equations gives the equations for $b$ or $c$ in terms of $a$ alone. It is easy to see that rational side $a$ generates rational sides $b$ and $c$ by these equations.
$b=(2a+1)(a^2+2a+2)/(2a(a+1))$
$c=(5a^2+6a+2)/(2a(a+1))$
One can easily plug these equations into Heron's formula to check for consistency. So, by this, it has been shown that for every integer area there is a side rational triangle.
Another interesting paper that attempts to parameterize the angles of these triangles can be found here.