Josephson junctions containing ferromagnetic layers are of considerable interest for the development of practical cryogenic memory and superconducting qubits. Such junctions exhibit a phase shift of $pi$ for certain ranges of ferromagnetic layer thickness. We present studies of Nb based micron-scale elliptically-shaped Josephson junctions containing ferromagnetic barriers of Ni$_{81}$Fe$_{19}$ or Ni$_{65}$Co$_{20}$Fe$_{15}$. By applying an external magnetic field, the critical current of the junctions are found to follow characteristic Fraunhofer patterns, and display sharp switching behavior suggestive of single-domain magnets. The high quality of the Fraunhofer patterns enables us to extract the maximum value of the critical current even when the peak is shifted significantly outside the range of the data due to the magnetic moment of the ferromagnetic layer. The maximum value of the critical current oscillates as a function of the ferromagnetic barrier thickness, indicating transitions in the phase difference across the junction between values of zero and $pi$. We compare the data to previous work and to models of the 0-$pi$ transitions based on existing theories.
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