The opening sentence of the sixth verse (48): لَقَدِ ابْتَغَوُا الْفِتْنَةَ مِن قَبْلُ (They sought disorder even earlier...) refers to what had happened in the battle of 'Uhud.
The statement وَظَهَرَ أَمْرُ اللَّـهِ وَهُمْ كَارِهُونَ (… and the will of Allah prevailed, though they disliked it) at the end of the verse indicates that victory is in the hands of Allah. This has been proved on earlier occasions when the Holy Prophet ﷺ was blessed with victory. The same will happen in this Jihad as well when all tricks played by hypocrites will fail.
(Verily, they had plotted sedition before, and had upset matters for you,) `For a long time,' Allah says, hypocrites thought and plotted against you and your Companions, as well as, failing and attempting to extinguish your religion.' This occurred soon after the Prophet migrated to Al-Madinah, when pagan Arabs joined force and the Jews and hypocrites of Al-Madinah waged war against the Messenger . When Allah gave victory to the Prophet in Badr and raised high his word, `Abdullah bin Ubayy and his fellows said, "This (Islam) is a matter that has prevailed." They embraced Islam outwardly, and whenever Allah elevated Islam and its people in might, hypocrites increased in rage and disappointment,
(until the truth (victory) came and the decree of Allah became manifest though they hated it.)