$V_X$ published in the manual is $V_X$ for flaps up. $V_{X_{F10}}$ will be slower than $V_{X_{UP}}$. Most likely, the speed in the procedure is, or is very close to $V_{X_{F10}}$.
$V_X$ (speed for angle of best climb) occurs where the excess thrust ($T$ - $D$) is the highest. Refer to the graph below:

$D$ is Induced drag ($D_I$, varies with $\frac{1}{v^2}$) + Parasite drag ($D_P$, varies with $v^2$). By extending the flaps, you are increasing only $D_P$ and the graph describing $D$ ($D_{tot}$ in the graph) moves upwards to the left. This means that the point for $V_{MD}$ moves to the left. Since $V_X$ is found at max $T - D$ it varies with thrust too (which will vary differently, depending on the type of propulsion system), and is not automatically found at $V_{MD}$, but the two speeds generally move together in the same direction.
There's also another, albeit marignal, effect (that i did not put in the graph) to take into consideration for the first 10-20 ft, and that's the ground effect. In ground effect, the aircrafts $D_I$ will be lower, further moving the $D$ graph to the left, and downwards, resulting in a lower $V_{MD}$, and therefore generally also lower $V_X$