I'm unsure exactly where your struggle is, in general. To try and address your issues, what kind of boundary conditions might we desire in dynamic problems?
Consider the two period consumption-savings problem where we have
$$c_1 + s_1 = y_1$$
$$c_2 = y_2 + (1+R)s_1$$
$y_1, y_2$ being endowments in each period, $s_1$ as savings, $R$ for interest, and $c_1, c_2$ for consumption. Given some $U(c_1, c_2)$, we want to solve for optimal consumption in each period. We can consolidate the budget as:
$$c_2 = y_2 + (1 + R)(y_1 - c_1)$$
$$\implies c_1 + \frac{c_2}{1 + R} = y_1 + \frac{y_2}{1 + R}$$
and express the Lagrangian problem:
$$\mathcal{L} = U(c_1, c_2) - \lambda(c_1 - \frac{c_2}{1 + R} - y_1 - \frac{y_2}{1 + R})$$
Solving for FOCs gets us:
$$U_{c_1} - \lambda = 0$$
$$U_{c_2} - \frac{\lambda}{1 + R} = 0$$
$$\implies \frac{U_{c_1}}{U_{c_2}} = 1 + R$$
But you can also express this problem as a Bellman, and still keep that original consolidated budget constraint.
$$\max_{c_1, c_2, y_1, y_2} U(c_1, c_2) \quad \text{s.t.} \ c_1 + \frac{c_2}{1 + R} = y_1 + \frac{y_2}{1 + R}$$
where you have a value function for $y_1$ (yes, $y_1$ is still given)
$$V(y_1) = \max_{c_1, c_2, y_2} \ U(c_1, c_2) \quad \text{s.t.} \ y_1 = c_1 + \frac{c_2}{1 + R} - \frac{y_2}{1 + R}$$
To make this problem less trivial for a Bellman, you can have a constraint where $c$ determines $y$ somehow instead. But otherwise you can still incorporate the budget constraint into your problem here, albeit it might look pretty weird.