The underwater environment poses challenges to the Underwater Acoustic OFDM (UWA-OFDM) system, causing the tendency of lacking pilots to recover the channel impulse response (CIR). Our previous research (pilot enrichment estimator) supplemented potential pilots based on the distance to the nearest constellation point below a fixed threshold T. However, this does not guarantee that the extracted pilots have sufficiently good quality. Therefore, this article presents a suitable pilot search (SPS) method with the flexible threshold T and second minimum mean square error (MMSE) estimation to improve channel estimation effectiveness in UWA-OFDM systems. Our approach is compared to the MMSE and PE methods across various criteria, such as pilot spacing and different modulators. The experiments demonstrate that the SPS estimator performs better than the MMSE and PE techniques regarding bit error rate (BER).