This is far from a complete answer. In particular, it loses a factor of 2. But I'll share anyway in case it is useful somehow.
For $p \in [0,1]$, let $B_p$ denote the Bernoulli distribution on $\{0,1\}$ with mean $p$. For $p \in [0,1]^n$, let $B_p = B_{p_1} \otimes B_{p_2} \otimes \cdots \otimes B_{p_n}$ be the product distribution on $\{0,1\}^n$ with mean $p$.
Fact 1: For product distributions $B_p$ and $B_q$ on $\{0,1\}^n$, we have $$TV(B_p,B_q) := \sup_{S \subset \{0,1\}^n} \mathbb{P}_{X \gets B_p}[ X \in S ] - \mathbb{P}_{Y \gets B_q} [Y \in S]$$ $$= \sup_{\theta \in \mathbb{R}^n, t \in \mathbb{R}} \mathbb{P}_{X \gets B_p}[\langle \theta, X \rangle \ge t] - \mathbb{P}_{Y \gets B_q}[\langle \theta, Y \rangle \ge t],$$
where the supremum is attained by setting $\theta_i = \log\left(\frac{p_i(1-q_i)}{q_i(1-p_i)}\right)$ for all $i$ and $t = \sum_i \log\left(\frac{1-p_i}{1-q_i}\right)$. This fact follows from the Neyman-Pearson lemma.
By Fact 1, the conjecture in the question follows from the following slightly stronger conjecture.
$$\forall p,q\in[0,1]^n ~~~~~ TV(B_p,B_q) \ge TV(B_{\bar{p}},B_{\bar{q}}),\tag{$*$}$$ where $\bar{p}_i = 1-\bar{q}_i = \frac12 + \frac{1}{2n} \sum_j^n p_j-q_j$ for all $i$.
Lemma 2. For any $p,q \in [0,1]$ there exists a randomized function $F_{p,q} : \{0,1\} \to \{0,1\}$ such that $F_{p,q}(B_p)=B_{(1+\gamma)/2}$ and $F_{p,q}(B_q) = B_{(1-\gamma)/2}$, where $\gamma = \frac{p-q}{1+|p+q-1|}$.
Proof.
We may assume $p \ne q$, since, if $p=q$, then the randomized function can just ignore its input and return a sample from $B_p=B_q$.
We define $F_{p,q}$ by its stochastic matrix
$$M = \left(\begin{array}{cc} \mathbb{P}[F_{p,q}(1)=1] & \mathbb{P}[F_{p,q}(1)=0] \\ \mathbb{P}[F_{p,q}(0)=1] & \mathbb{P}[F_{p,q}(0)=0] \end{array}\right) = \left(\begin{array}{cc} \frac12 + \frac{\gamma}{p-q}\frac{2-p-q}{2} & \frac12 - \frac{\gamma}{p-q}\frac{2-p-q}{2} \\ \frac12 - \frac{\gamma}{p-q}\frac{p+q}{2} & \frac12 + \frac{\gamma}{p-q}\frac{p+q}{2} \end{array}\right).$$
The randomized function is well-defined as long as $M$ is a valid stochastic matrix.
The rows of $M$ sum to $1$ and the entries are non-negative, since $$0 \le \frac{\gamma}{p-q}\frac{2-p-q}{2} = \frac12 \frac{2-p-q}{1+|1-p-q|} \le \frac12$$ and $$0 \le \frac{\gamma}{p-q} \frac{p+q}{2} = \frac12 \frac{p+q}{1+|p+q-1|} \le \frac12.$$
Next we verify $F_{p,q}(B_p) = B_{(1+\gamma)/2}$, which boils down to a matrix-vector multiplication:
$$\big(\mathbb{P}[F(B_p)=1] ~,~ \mathbb{P}[F(B_p)=0\big) = \big(\mathbb{P}[B_p=1] ~,~ \mathbb{P}[B_p=0]\big) M = \big(p ~,~ 1-p\big) M$$ $$=\left( \frac{p+1-p}{2} + \frac{\gamma}{2(p-q)}\big(p(2-p-q) -(1-p)(p+q)\big) ~,~ \frac{p+1-p}{2} - \frac{\gamma}{2(p-q)}\big(p(2-p-q)-(1-p)(p+q)\big)\right)$$
$$= \left( \frac12 + \frac{\gamma}{2} ~,~ \frac12 - \frac{\gamma}{2}\right).$$
A similar calculation shows that $F_{p,q}(B_q)=B_{(1-\gamma)/2}$, as required.
∎
Back to the question: Suppose we are given $p,q\in[0,1]^n$. Define $\gamma,\hat{p},\hat{q} \in [0,1]^n$ by $\gamma_i = \frac{p_i-q_i}{1+|p_i+q_i-1|}$ and $\hat{p}_i=1-\hat{q}_i=\frac12+\frac12\gamma_i$ for all $i$.
Define a randomized function $F_{p,q} : \{0,1\}^n \to \{0,1\}^n$ as follows. Given $x \in \{0,1\}^n$, independently for each $i$, let $y_i = F_{p_i,q_i}(x_i)$, where $F_{p_i,q_i}$ is the function given by Lemma 1; then $F_{p,q}(x)=y$.
By Lemma 1 and the fact that all the coordinates are independent, we have $F_{p,q}(B_p) = B_{\hat{p}}$ and $F_{p,q}(B_q) = B_{\hat{q}}$.
By the data processing inequality for total variation distance, we now have
$$TV(B_p,B_q) \ge TV(F_{p,q}(B_p),F_{p,q}(B_q)) = TV(B_{\hat{p}},B_{\hat{q}}). \tag{$\dagger$}$$
What we can show ($\dagger$) is weaker than what we want ($*$) in two ways: First, $\bar{p}$ and $\bar{q}$ are uniform across coordinates, while $\hat{p}$ and $\hat{q}$ are not. Secondly, we lose a factor of 2; we want $\|\bar{p}-\bar{q}\|_1 = \|p-q\|_1$, but instead we have $$\frac12 \|p-q\|_1 \le \|\hat{p}-\hat{q}\|_1 = \|\gamma\|_1 = \sum_i^n \frac{|p_i-q_i|}{1+|p_i+q_i-1|} \le \|p-q\|_1.$$