Real-time waveform generation supports dynamic quantum circuits without pre-storing complete waveforms for every execution path. However, long-lived distortions in flux-control lines degrade gate fidelity, requiring compensation to account for the actual pulse history. A frequency-domain inversion and time-domain fitting method is proposed for resource-efficient real-time flux distortion compensation. The method fits the reconstructed compensation impulse response with a compact hybrid infinite impulse response (IIR) and finite impulse response (FIR) filter. Look-ahead parallelization enables this filter to process synthesized waveforms at 1.2GSa/s on a field-programmable gate array (FPGA). Two-qubit cross-entropy benchmarking shows that real-time IIR filtering achieves a median controlled-Z Pauli fidelity close to the software-reference value of 99.57%. Numerical analysis and FPGA synthesis indicate approximately logarithmic growth in hardware resource use with compensation timescale. Extending compensation from microsecond to hundred-microsecond timescales increases look-up table (LUT) and digital signal processing (DSP) resource use by only about 14% and 4%, respectively, while maintaining a relative arithmetic error below $10^{-4}$. This work provides a scalable hardware foundation for high-fidelity flux control in dynamic superconducting quantum circuits.

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