This paper determines the exact lengths of shortest self-orthogonal and LCD embeddings of linear codes over $\mathbb{F}_q+u\mathbb{F}_q$. By decomposing Gram matrices over $\mathbb{F}_q+u\mathbb{F}_q$ into pairs of symmetric matrices over the finite field $\mathbb{F}_q$, the embedding problems are reduced to the congruence classification of symmetric and alternate matrices over finite fields. Complete formulas for the shortest self-orthogonal embedding length are obtained, with two distinct cases arising in both even and odd characteristic. We also show that every self-orthogonal code over $\mathbb{F}_q+u\mathbb{F}_q$ with nonzero free rank can be viewed as a shortest self-orthogonal embedding of another code. We use Witt theory to construct all shortest self-orthogonal embeddings. A complete characterization of shortest LCD embeddings is also established in terms of invertible and arbitrary matrices of prescribed sizes appended to a generator matrix. Examples of self-orthogonal and LCD embeddings with the largest minimum distance for the code considered are also presented, some of whose Gray images are optimal codes over $\mathbb{F}_q$.

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