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That is the analytic side, on the algebraic it has to vary as well. The $\mu$-invariant changes. For instance the $\mu$-invariant for 11a1 at $p=5$ is 1, while for 11a2, the $X_1$-optimal curve, it is zero. This means that the Tate-Shafarevich group of 11a1 grows exponentially in size in the cyclotomic $\mathbb{Z}_5$-tower while the one of 11a2 stays the same.
Nono, the $p$-adic $L$-function must depend on the curve in the isogeny class. It is defined to interpolate values of the form $$ \frac{L(E,\chi,1)}{\Omega_E} = \frac{L(f,\chi,1)}{\Omega_E}$$ where $f$ is the modular form attached to the isogeny class of $E$ and $\Omega_E$ is the Néron period of $E$. So the $p$-adic $L$-function varies as the period varies.