Simple indexing does exactly what you need:
>> A={[95],[112],[98],[84],[69],[121],[108]};
>> B={[1,2,4],[4,3],[6,9,98],[3,7,88],[2,9,1],[55,7],[1,4],[0],[0]};
>> A(end+1:numel(B)) = {[0]};
>> B(end+1:numel(A)) = {[0]};
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