In this paper, we study the smallest non-zero eigenvalue of the sample covariance matrices $\mathcal{S}(Y)=YY^*$, where $Y=(y_{ij})$ is an $M\times N$ matrix with iid mean $0$ variance $N^{-1}$ entries. We prove a phase transition for its distribution, induced by the fatness of the tail of $y_{ij}$'s. More specifically, we assume that $y_{ij}$ is symmetrically distributed with tail probability $\mathbb{P}(|\sqrt{N}y_{ij}|\geq x)\sim x^{-α}$ when $x\to \infty$, for some $α\in (2,4)$. We show the following conclusions: (i). When $α>\frac83$, the smallest eigenvalue follows the Tracy-Widom law on scale $N^{-\frac23}$; (ii). When $2<α<\frac83$, the smallest eigenvalue follows the Gaussian law on scale $N^{-\fracα{4}}$; (iii). When $α=\frac83$, the distribution is given by an interpolation between Tracy-Widom and Gaussian; (iv). In case $α\leq \frac{10}{3}$, in addition to the left edge of the MP law, a deterministic shift of order $N^{1-\fracα{2}}$ shall be subtracted from the smallest eigenvalue, in both the Tracy-Widom law and the Gaussian law. Overall speaking, our proof strategy is inspired by \cite{ALY} which is originally done for the bulk regime of the Lévy Wigner matrices. In addition to various technical complications arising from the bulk-to-edge extension, two ingredients are needed for our derivation: an intermediate left edge local law based on a simple but effective matrix minor argument, and a mesoscopic CLT for the linear spectral statistic with asymptotic expansion for its expectation.