Multiplying delay locked loops (MDLLs) with compensation for realignment error are provided. In certain implementations, an MDLL includes a control circuit, a multiplexed oscillator, and an integrate and subtract circuit. The control circuit selectively injects a reference clock signal into the multiplexed oscillator, which operates with an injected period when the reference clock signal is injected and with a natural period when the reference clock signal is not injected. The integrate and subtract circuit receives an oscillator signal from the multiplexed oscillator, and tunes an oscillation frequency of the multiplexed oscillator based on a difference between an integration of the oscillator signal over the injected period and an integration of the oscillator signal over the natural period.