[guided]We prove the identity by comparing entries, so we first make the indexing explicit. Let $X=\{x_1,\dots,x_v\}$ be the point set of $\mathcal D$. Let $B_1,\dots,B_b$ be an indexing of the blocks of $\mathcal D$, where $b$ denotes the number of blocks. By the definition of the incidence matrix $N$, for each $i \in \{1,\dots,v\}$ and each $\ell \in \{1,\dots,b\}$, the entry $N_{i\ell}$ equals $1$ if $x_i \in B_\ell$ and equals $0$ otherwise.
Fix indices $i,j \in \{1,\dots,v\}$. Since $N$ is a $v \times b$ matrix and $N^\top$ is a $b \times v$ matrix, the definition of matrix multiplication gives
\begin{align*}
(NN^\top)_{ij} = \sum_{\ell=1}^{b} N_{i\ell}(N^\top)_{\ell j} = \sum_{\ell=1}^{b} N_{i\ell}N_{j\ell}.
\end{align*}
Now interpret this sum combinatorially. For each block index $\ell \in \{1,\dots,b\}$, the entry $N_{i\ell}$ records whether $x_i$ belongs to $B_\ell$, and $N_{j\ell}$ records whether $x_j$ belongs to $B_\ell$. Therefore the product $N_{i\ell}N_{j\ell}$ is equal to $1$ precisely for those blocks $B_\ell$ that contain both relevant points, and is equal to $0$ for all other blocks. Hence the full sum counts the number of blocks containing both $x_i$ and $x_j$.
There are two cases. First suppose $i=j$. Then the sum counts the blocks containing the single point $x_i$. Because the replication number is $r$, every point of $X$ lies in exactly $r$ blocks. Thus
\begin{align*}
(NN^\top)_{ii}=r.
\end{align*}
Second suppose $i \ne j$. Then $x_i$ and $x_j$ are distinct points of the point set $X$. The defining property of a $2$-$(v,k,\lambda)$ design says that every pair of distinct points lies together in exactly $\lambda$ blocks. Applying that property to the pair $\{x_i,x_j\}$ gives
\begin{align*}
(NN^\top)_{ij}=\lambda.
\end{align*}
This gives the full entrywise description of $NN^\top$: its diagonal entries are $r$, and its off-diagonal entries are $\lambda$. The matrix $(r-\lambda)I_v+\lambda J_v$ has the same entries, because $I_v$ has diagonal entries $1$ and off-diagonal entries $0$, while $J_v$ has every entry equal to $1$. Therefore the two matrices are equal:
\begin{align*}
NN^\top=(r-\lambda)I_v+\lambda J_v.
\end{align*}[/guided]