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Due to the effective multi-scale feature fusion capabilities of the Path Aggregation FPN (PAFPN), it has become a widely adopted component in YOLO-based detectors. However, PAFPN struggles to integrate high-level semantic cues with low-level spatial details, limiting its performance in real-world applications, especially with significant scale variations. In this paper, we propose MHAF-YOLO, a novel detection framework featuring a versatile neck design called the Multi-Branch Auxiliary FPN (MAFPN), which consists of two key modules: the Superficial Assisted Fusion (SAF) and Advanced Assisted Fusion (AAF). The SAF bridges the backbone and the neck by fusing shallow features, effectively transferring crucial low-level spatial information with high fidelity. Meanwhile, the AAF integrates multi-scale feature information at deeper neck layers, delivering richer gradient information to the output layer and further enhancing the model learning capacity. To complement MAFPN, we introduce the Global Heterogeneous Flexible Kernel Selection (GHFKS) mechanism and the Reparameterized Heterogeneous Multi-Scale (RepHMS) module to enhance feature fusion. RepHMS is globally integrated into the network, utilizing GHFKS to select larger convolutional kernels for various feature layers, expanding the vertical receptive field and capturing contextual information across spatial hierarchies. Locally, it optimizes convolution by processing both large and small kernels within the same layer, broadening the lateral receptive field and preserving crucial details for detecting smaller targets. The source code of this work is available at: https://github.com/yang-0201/MHAF-YOLO.