References for wind instruments (LilyPond Notation Reference)

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Many notation issues for wind instruments pertain to breathing and tonguing:

Breathing can be specified by rests or Breath marks.
Legato playing is indicated by Slurs.
Different types of tonguings, ranging from legato to non-legato to staccato are usually shown by articulation marks, sometimes combined with slurs, see Articulations and ornamentations and List of articulations.
Flutter tonguing is usually indicated by placing a tremolo mark and a text markup on the note. See Tremolo repeats.

Other aspects of musical notation that can apply to wind instruments:

Many wind instruments are transposing instruments, see Instrument transpositions.
Slide glissandi are characteristic of the trombone, but other winds may perform keyed or valved glissandi. See Glissando.
Harmonic series glissandi, which are possible on all brass instruments but common for French Horns, are usually written out as Grace notes.
Pitch inflections at the end of a note are discussed in Falls and doits.
Key slaps or valve slaps are often shown by the cross style of Special note heads.
Woodwinds can overblow low notes to sound harmonics. These are shown by the flageolet articulation. See List of articulations.
The use of brass mutes is usually indicated by a text markup, but where there are many rapid changes it is better to use the stopped and open articulations. See Articulations and ornamentations and List of articulations.
Stopped horns are indicated by the stopped articulation. See Articulations and ornamentations.