If your question is "how to eliminate an algebraic loop if the Unit Delay changes my system's dynamics", this blog entry discusses reconsidering unphysical algebraic loops in your model. Simscape can be a workaround for loops, see Guy Rouleau's answer on this topic. If your time sampling is continuous you may want to try the Memory block instead of the Unit Delay block which is more appropriate for discrete sampling.
How to make a Flip-flop
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Cannot solve algebraic loop involving 'SRLatch/Subsystem/nor2'...
I know that there exists a nice Simulink Extas/Flip flops but want to do my own.
I've tried adding memory and delay (z^-1) block but the results were wrong.
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